Extensive test code for tableone package
References
Load packages
## Load devtools
library(devtools)
## Load testthat for unit testing
library(testthat)
## Load from the local repo
load_all("~/statistics/package_development/tableone/")
## Load data
library(survival)
data(pbc)
head(pbc)
## id time status trt age sex ascites hepato spiders edema bili chol albumin copper alk.phos ast trig platelet
## 1 1 400 2 1 58.77 f 1 1 1 1.0 14.5 261 2.60 156 1718 137.95 172 190
## 2 2 4500 0 1 56.45 f 0 1 1 0.0 1.1 302 4.14 54 7395 113.52 88 221
## 3 3 1012 2 1 70.07 m 0 0 0 0.5 1.4 176 3.48 210 516 96.10 55 151
## 4 4 1925 2 1 54.74 f 0 1 1 0.5 1.8 244 2.54 64 6122 60.63 92 183
## 5 5 1504 1 2 38.11 f 0 1 1 0.0 3.4 279 3.53 143 671 113.15 72 136
## 6 6 2503 2 2 66.26 f 0 1 0 0.0 0.8 248 3.98 50 944 93.00 63 NA
## protime stage
## 1 12.2 4
## 2 10.6 3
## 3 12.0 4
## 4 10.3 4
## 5 10.9 3
## 6 11.0 3
Continuous variables
### Define variables
vars <- c("time","age","bili","chol","albumin","copper","alk.phos","ast","trig","platelet","protime")
## Strata
strata <- "status"
strataTwoVars <- c("status","sex")
strataThreeVars <- c("sex","ascites","hepato")
## Data and variables
dataFrame <- pbc
nonNormalVars <- c("bili","chol","copper","alk.phos","trig","protime")
## Create edema strata that are of sizes 1, 2, and 3
smallDataFrame <- pbc[c(2, 3,4, 1,10,14),]
smallStrata <- "edema"
### Behaviors on correct data format (non-stratified, single variable)
## Creation
contTable <- CreateContTable(vars = "age", data = dataFrame)
## print method
contTable
##
## Overall
## n 418
## age (mean (sd)) 50.74 (10.45)
## summary method
summary(contTable)
## strata: Overall
## n miss mean sd median p25 p75 min max skew kurt
## age 418 0 51 10 51 43 58 26 78 0.087 -0.62
## Five digits
summary(contTable, digits = 5)
## strata: Overall
## n miss mean sd median p25 p75 min max skew kurt
## age 418 0 50.742 10.447 51.001 42.832 58.241 26.278 78.439 0.08685 -0.61673
## print method by default
print(contTable)
##
## Overall
## n 418
## age (mean (sd)) 50.74 (10.45)
## Five digits
print(contTable, digits = 5)
##
## Overall
## n 418
## age (mean (sd)) 50.74155 (10.44721)
## All nonnormal
print(contTable, nonnormal = TRUE)
##
## Overall
## n 418
## age (median [IQR]) 51.00 [42.83, 58.24]
## quote
print(contTable, quote = TRUE)
## ""
## "" "Overall"
## "n" "418"
## "age (mean (sd))" "50.74 (10.45)"
## Partially nonnormal
print(contTable, nonnormal = nonNormalVars)
##
## Overall
## n 418
## age (mean (sd)) 50.74 (10.45)
## Partially nonnormal median [range]
print(contTable, nonnormal = nonNormalVars, minMax = TRUE)
##
## Overall
## n 418
## age (mean (sd)) 50.74 (10.45)
## test
print(contTable, test = FALSE)
##
## Overall
## n 418
## age (mean (sd)) 50.74 (10.45)
## pDigits
print(contTable, pDigits = 5)
##
## Overall
## n 418
## age (mean (sd)) 50.74 (10.45)
## No explanation
print(contTable, explain = FALSE)
##
## Overall
## n 418
## age 50.74 (10.45)
### Behaviors on correct data format (non-stratified)
## Creation
contTable <- CreateContTable(vars = vars, data = dataFrame)
## print method
contTable
##
## Overall
## n 418
## time (mean (sd)) 1917.78 (1104.67)
## age (mean (sd)) 50.74 (10.45)
## bili (mean (sd)) 3.22 (4.41)
## chol (mean (sd)) 369.51 (231.94)
## albumin (mean (sd)) 3.50 (0.42)
## copper (mean (sd)) 97.65 (85.61)
## alk.phos (mean (sd)) 1982.66 (2140.39)
## ast (mean (sd)) 122.56 (56.70)
## trig (mean (sd)) 124.70 (65.15)
## platelet (mean (sd)) 257.02 (98.33)
## protime (mean (sd)) 10.73 (1.02)
## summary method
summary(contTable)
## strata: Overall
## n miss mean sd median p25 p75 min max skew kurt
## time 418 0 1917.8 1104.67 1730.0 1092.8 2613.5 41.0 4795.0 0.473 -0.48
## age 418 0 50.7 10.45 51.0 42.8 58.2 26.3 78.4 0.087 -0.62
## bili 418 0 3.2 4.41 1.4 0.8 3.4 0.3 28.0 2.718 8.07
## chol 418 134 369.5 231.94 309.5 249.5 400.0 120.0 1775.0 3.409 14.34
## albumin 418 0 3.5 0.42 3.5 3.2 3.8 2.0 4.6 -0.468 0.57
## copper 418 108 97.6 85.61 73.0 41.2 123.0 4.0 588.0 2.304 7.62
## alk.phos 418 106 1982.7 2140.39 1259.0 871.5 1980.0 289.0 13862.4 2.993 9.66
## ast 418 106 122.6 56.70 114.7 80.6 151.9 26.4 457.2 1.449 4.31
## trig 418 136 124.7 65.15 108.0 84.2 151.0 33.0 598.0 2.524 11.80
## platelet 418 11 257.0 98.33 251.0 188.5 318.0 62.0 721.0 0.627 0.86
## protime 418 2 10.7 1.02 10.6 10.0 11.1 9.0 18.0 2.223 10.04
## Five digits
summary(contTable, digits = 5)
## strata: Overall
## n miss mean sd median p25 p75 min max skew kurt
## time 418 0 1917.7823 1104.67299 1730.000 1092.7500 2613.500 41.000 4795.000 0.47260 -0.48214
## age 418 0 50.7416 10.44721 51.001 42.8323 58.241 26.278 78.439 0.08685 -0.61673
## bili 418 0 3.2208 4.40751 1.400 0.8000 3.400 0.300 28.000 2.71761 8.06534
## chol 418 134 369.5106 231.94455 309.500 249.5000 400.000 120.000 1775.000 3.40853 14.33787
## albumin 418 0 3.4974 0.42497 3.530 3.2425 3.770 1.960 4.640 -0.46753 0.56674
## copper 418 108 97.6484 85.61392 73.000 41.2500 123.000 4.000 588.000 2.30364 7.62402
## alk.phos 418 106 1982.6558 2140.38882 1259.000 871.5000 1980.000 289.000 13862.400 2.99283 9.66255
## ast 418 106 122.5563 56.69952 114.700 80.6000 151.900 26.350 457.250 1.44920 4.31198
## trig 418 136 124.7021 65.14864 108.000 84.2500 151.000 33.000 598.000 2.52390 11.80275
## platelet 418 11 257.0246 98.32558 251.000 188.5000 318.000 62.000 721.000 0.62710 0.86304
## protime 418 2 10.7317 1.02200 10.600 10.0000 11.100 9.000 18.000 2.22328 10.04077
## print method by default
print(contTable)
##
## Overall
## n 418
## time (mean (sd)) 1917.78 (1104.67)
## age (mean (sd)) 50.74 (10.45)
## bili (mean (sd)) 3.22 (4.41)
## chol (mean (sd)) 369.51 (231.94)
## albumin (mean (sd)) 3.50 (0.42)
## copper (mean (sd)) 97.65 (85.61)
## alk.phos (mean (sd)) 1982.66 (2140.39)
## ast (mean (sd)) 122.56 (56.70)
## trig (mean (sd)) 124.70 (65.15)
## platelet (mean (sd)) 257.02 (98.33)
## protime (mean (sd)) 10.73 (1.02)
## Five digits
print(contTable, digits = 5)
##
## Overall
## n 418
## time (mean (sd)) 1917.78230 (1104.67299)
## age (mean (sd)) 50.74155 (10.44721)
## bili (mean (sd)) 3.22081 (4.40751)
## chol (mean (sd)) 369.51056 (231.94455)
## albumin (mean (sd)) 3.49744 (0.42497)
## copper (mean (sd)) 97.64839 (85.61392)
## alk.phos (mean (sd)) 1982.65577 (2140.38882)
## ast (mean (sd)) 122.55635 (56.69952)
## trig (mean (sd)) 124.70213 (65.14864)
## platelet (mean (sd)) 257.02457 (98.32558)
## protime (mean (sd)) 10.73173 (1.02200)
## All nonnormal
print(contTable, nonnormal = TRUE)
##
## Overall
## n 418
## time (median [IQR]) 1730.00 [1092.75, 2613.50]
## age (median [IQR]) 51.00 [42.83, 58.24]
## bili (median [IQR]) 1.40 [0.80, 3.40]
## chol (median [IQR]) 309.50 [249.50, 400.00]
## albumin (median [IQR]) 3.53 [3.24, 3.77]
## copper (median [IQR]) 73.00 [41.25, 123.00]
## alk.phos (median [IQR]) 1259.00 [871.50, 1980.00]
## ast (median [IQR]) 114.70 [80.60, 151.90]
## trig (median [IQR]) 108.00 [84.25, 151.00]
## platelet (median [IQR]) 251.00 [188.50, 318.00]
## protime (median [IQR]) 10.60 [10.00, 11.10]
## quote
print(contTable, quote = TRUE)
## ""
## "" "Overall"
## "n" "418"
## "time (mean (sd))" "1917.78 (1104.67)"
## "age (mean (sd))" " 50.74 (10.45)"
## "bili (mean (sd))" " 3.22 (4.41)"
## "chol (mean (sd))" " 369.51 (231.94)"
## "albumin (mean (sd))" " 3.50 (0.42)"
## "copper (mean (sd))" " 97.65 (85.61)"
## "alk.phos (mean (sd))" "1982.66 (2140.39)"
## "ast (mean (sd))" " 122.56 (56.70)"
## "trig (mean (sd))" " 124.70 (65.15)"
## "platelet (mean (sd))" " 257.02 (98.33)"
## "protime (mean (sd))" " 10.73 (1.02)"
## Partially nonnormal
print(contTable, nonnormal = nonNormalVars)
##
## Overall
## n 418
## time (mean (sd)) 1917.78 (1104.67)
## age (mean (sd)) 50.74 (10.45)
## bili (median [IQR]) 1.40 [0.80, 3.40]
## chol (median [IQR]) 309.50 [249.50, 400.00]
## albumin (mean (sd)) 3.50 (0.42)
## copper (median [IQR]) 73.00 [41.25, 123.00]
## alk.phos (median [IQR]) 1259.00 [871.50, 1980.00]
## ast (mean (sd)) 122.56 (56.70)
## trig (median [IQR]) 108.00 [84.25, 151.00]
## platelet (mean (sd)) 257.02 (98.33)
## protime (median [IQR]) 10.60 [10.00, 11.10]
## Partially nonnormal median [range]
print(contTable, nonnormal = nonNormalVars, minMax = TRUE)
##
## Overall
## n 418
## time (mean (sd)) 1917.78 (1104.67)
## age (mean (sd)) 50.74 (10.45)
## bili (median [range]) 1.40 [0.30, 28.00]
## chol (median [range]) 309.50 [120.00, 1775.00]
## albumin (mean (sd)) 3.50 (0.42)
## copper (median [range]) 73.00 [4.00, 588.00]
## alk.phos (median [range]) 1259.00 [289.00, 13862.40]
## ast (mean (sd)) 122.56 (56.70)
## trig (median [range]) 108.00 [33.00, 598.00]
## platelet (mean (sd)) 257.02 (98.33)
## protime (median [range]) 10.60 [9.00, 18.00]
## test
print(contTable, test = FALSE)
##
## Overall
## n 418
## time (mean (sd)) 1917.78 (1104.67)
## age (mean (sd)) 50.74 (10.45)
## bili (mean (sd)) 3.22 (4.41)
## chol (mean (sd)) 369.51 (231.94)
## albumin (mean (sd)) 3.50 (0.42)
## copper (mean (sd)) 97.65 (85.61)
## alk.phos (mean (sd)) 1982.66 (2140.39)
## ast (mean (sd)) 122.56 (56.70)
## trig (mean (sd)) 124.70 (65.15)
## platelet (mean (sd)) 257.02 (98.33)
## protime (mean (sd)) 10.73 (1.02)
## pDigits
print(contTable, pDigits = 5)
##
## Overall
## n 418
## time (mean (sd)) 1917.78 (1104.67)
## age (mean (sd)) 50.74 (10.45)
## bili (mean (sd)) 3.22 (4.41)
## chol (mean (sd)) 369.51 (231.94)
## albumin (mean (sd)) 3.50 (0.42)
## copper (mean (sd)) 97.65 (85.61)
## alk.phos (mean (sd)) 1982.66 (2140.39)
## ast (mean (sd)) 122.56 (56.70)
## trig (mean (sd)) 124.70 (65.15)
## platelet (mean (sd)) 257.02 (98.33)
## protime (mean (sd)) 10.73 (1.02)
## No explanation
print(contTable, explain = FALSE)
##
## Overall
## n 418
## time 1917.78 (1104.67)
## age 50.74 (10.45)
## bili 3.22 (4.41)
## chol 369.51 (231.94)
## albumin 3.50 (0.42)
## copper 97.65 (85.61)
## alk.phos 1982.66 (2140.39)
## ast 122.56 (56.70)
## trig 124.70 (65.15)
## platelet 257.02 (98.33)
## protime 10.73 (1.02)
### Behaviors on correct data format (stratified, 2-groups)
## Creation
contTable <- CreateContTable(vars = vars, strata = "sex", data = dataFrame)
## print method
contTable
## Stratified by sex
## m f p test
## n 44 374
## time (mean (sd)) 1894.02 (1213.03) 1920.58 (1092.95) 0.880
## age (mean (sd)) 55.71 (10.98) 50.16 (10.24) 0.001
## bili (mean (sd)) 2.87 (2.32) 3.26 (4.59) 0.573
## chol (mean (sd)) 362.46 (178.99) 370.50 (238.73) 0.848
## albumin (mean (sd)) 3.54 (0.46) 3.49 (0.42) 0.536
## copper (mean (sd)) 154.28 (100.67) 90.21 (80.74) <0.001
## alk.phos (mean (sd)) 2172.95 (2418.45) 1957.83 (2105.05) 0.571
## ast (mean (sd)) 121.99 (47.01) 122.63 (57.92) 0.949
## trig (mean (sd)) 133.43 (52.17) 123.47 (66.78) 0.398
## platelet (mean (sd)) 231.14 (85.23) 260.08 (99.42) 0.068
## protime (mean (sd)) 10.94 (0.93) 10.71 (1.03) 0.151
## summary method
summary(contTable)
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 44 0 1894.0 1213.03 1507.0 1060.8 2715.8 140.0 4459.0 0.82210 -0.38
## age 44 0 55.7 10.98 54.0 49.0 64.6 33.5 78.4 0.00017 -0.61
## bili 44 0 2.9 2.32 2.0 1.3 3.5 0.6 9.5 1.40185 1.07
## chol 44 9 362.5 178.99 317.0 245.0 426.5 151.0 1000.0 1.59223 3.42
## albumin 44 0 3.5 0.46 3.6 3.3 3.9 2.3 4.3 -0.92362 0.81
## copper 44 8 154.3 100.67 134.5 80.8 211.8 13.0 444.0 0.92109 0.76
## alk.phos 44 8 2172.9 2418.45 1116.0 852.0 2313.0 516.0 10396.8 2.44193 5.79
## ast 44 8 122.0 47.01 121.7 82.8 153.5 46.5 221.9 0.33766 -0.79
## trig 44 9 133.4 52.17 126.0 91.0 163.0 49.0 242.0 0.44729 -0.66
## platelet 44 1 231.1 85.23 217.0 165.5 298.5 70.0 394.0 0.01168 -0.97
## protime 44 0 10.9 0.93 10.9 10.3 11.2 9.7 14.1 1.37610 2.53
## ---------------------------------------------------------------------------------------
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 374 0 1920.6 1092.95 1773.0 1095.5 2606.2 41.0 4795.0 0.423 -0.49
## age 374 0 50.2 10.24 50.2 42.4 57.0 26.3 76.7 0.068 -0.66
## bili 374 0 3.3 4.59 1.3 0.7 3.4 0.3 28.0 2.649 7.40
## chol 374 125 370.5 238.73 309.0 252.0 395.0 120.0 1775.0 3.478 14.38
## albumin 374 0 3.5 0.42 3.5 3.2 3.8 2.0 4.6 -0.411 0.58
## copper 374 100 90.2 80.74 67.0 40.0 111.8 4.0 588.0 2.705 10.88
## alk.phos 374 98 1957.8 2105.05 1270.5 877.5 1963.8 289.0 13862.4 3.102 10.59
## ast 374 98 122.6 57.92 113.3 80.6 151.9 26.4 457.2 1.516 4.49
## trig 374 127 123.5 66.78 106.0 84.0 146.0 33.0 598.0 2.674 12.42
## platelet 374 10 260.1 99.42 252.5 190.0 319.0 62.0 721.0 0.654 0.89
## protime 374 2 10.7 1.03 10.6 10.0 11.1 9.0 18.0 2.328 10.85
##
## p-values
## pNormal pNonNormal
## time 0.88032351 0.57591934
## age 0.00080217 0.00265366
## bili 0.57291443 0.02892490
## chol 0.84802992 0.94479917
## albumin 0.53603916 0.27292778
## copper 0.00001921 0.00001876
## alk.phos 0.57143514 0.94518752
## ast 0.94936505 0.71776531
## trig 0.39810994 0.10007135
## platelet 0.06788007 0.11288380
## protime 0.15131569 0.04169974
## Five digits
summary(contTable, digits = 5)
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 44 0 1894.0227 1213.03436 1507.000 1060.7500 2715.750 140.000 4459.000 0.82209739 -0.37536
## age 44 0 55.7107 10.97780 54.001 48.9692 64.582 33.476 78.439 0.00016734 -0.60536
## bili 44 0 2.8659 2.31948 2.050 1.3000 3.500 0.600 9.500 1.40184985 1.07155
## chol 44 9 362.4571 178.99332 317.000 245.0000 426.500 151.000 1000.000 1.59223319 3.41710
## albumin 44 0 3.5350 0.45660 3.645 3.3275 3.870 2.270 4.300 -0.92362326 0.81075
## copper 44 8 154.2778 100.66539 134.500 80.7500 211.750 13.000 444.000 0.92109164 0.76207
## alk.phos 44 8 2172.9500 2418.44624 1116.000 852.0000 2313.000 516.000 10396.800 2.44192745 5.78848
## ast 44 8 121.9906 47.01310 121.675 82.7700 153.450 46.500 221.880 0.33765872 -0.78812
## trig 44 9 133.4286 52.16844 126.000 91.0000 163.000 49.000 242.000 0.44729489 -0.66362
## platelet 44 1 231.1395 85.22563 217.000 165.5000 298.500 70.000 394.000 0.01167704 -0.97192
## protime 44 0 10.9409 0.93145 10.900 10.2750 11.225 9.700 14.100 1.37610475 2.52950
## ---------------------------------------------------------------------------------------
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 374 0 1920.5775 1092.95317 1773.000 1095.500 2606.2500 41.000 4795.000 0.423094 -0.49022
## age 374 0 50.1569 10.24065 50.193 42.379 56.9993 26.278 76.709 0.068061 -0.66008
## bili 374 0 3.2626 4.59139 1.300 0.700 3.4000 0.300 28.000 2.648590 7.39780
## chol 374 125 370.5020 238.72656 309.000 252.000 395.0000 120.000 1775.000 3.477832 14.38135
## albumin 374 0 3.4930 0.42153 3.520 3.240 3.7675 1.960 4.640 -0.410847 0.58386
## copper 374 100 90.2080 80.73838 67.000 40.000 111.7500 4.000 588.000 2.704782 10.87987
## alk.phos 374 98 1957.8348 2105.04905 1270.500 877.500 1963.7500 289.000 13862.400 3.102248 10.59178
## ast 374 98 122.6301 57.91665 113.335 80.600 151.9000 26.350 457.250 1.515794 4.48689
## trig 374 127 123.4656 66.78096 106.000 84.000 146.0000 33.000 598.000 2.673765 12.41800
## platelet 374 10 260.0824 99.41838 252.500 190.000 319.0000 62.000 721.000 0.654158 0.89382
## protime 374 2 10.7070 1.03053 10.600 10.000 11.1000 9.000 18.000 2.327509 10.84613
##
## p-values
## pNormal pNonNormal
## time 0.88032351 0.57591934
## age 0.00080217 0.00265366
## bili 0.57291443 0.02892490
## chol 0.84802992 0.94479917
## albumin 0.53603916 0.27292778
## copper 0.00001921 0.00001876
## alk.phos 0.57143514 0.94518752
## ast 0.94936505 0.71776531
## trig 0.39810994 0.10007135
## platelet 0.06788007 0.11288380
## protime 0.15131569 0.04169974
## print method by default
print(contTable)
## Stratified by sex
## m f p test
## n 44 374
## time (mean (sd)) 1894.02 (1213.03) 1920.58 (1092.95) 0.880
## age (mean (sd)) 55.71 (10.98) 50.16 (10.24) 0.001
## bili (mean (sd)) 2.87 (2.32) 3.26 (4.59) 0.573
## chol (mean (sd)) 362.46 (178.99) 370.50 (238.73) 0.848
## albumin (mean (sd)) 3.54 (0.46) 3.49 (0.42) 0.536
## copper (mean (sd)) 154.28 (100.67) 90.21 (80.74) <0.001
## alk.phos (mean (sd)) 2172.95 (2418.45) 1957.83 (2105.05) 0.571
## ast (mean (sd)) 121.99 (47.01) 122.63 (57.92) 0.949
## trig (mean (sd)) 133.43 (52.17) 123.47 (66.78) 0.398
## platelet (mean (sd)) 231.14 (85.23) 260.08 (99.42) 0.068
## protime (mean (sd)) 10.94 (0.93) 10.71 (1.03) 0.151
## Five digits
print(contTable, digits = 5)
## Stratified by sex
## m f p test
## n 44 374
## time (mean (sd)) 1894.02273 (1213.03436) 1920.57754 (1092.95317) 0.880
## age (mean (sd)) 55.71072 (10.97780) 50.15694 (10.24065) 0.001
## bili (mean (sd)) 2.86591 (2.31948) 3.26257 (4.59139) 0.573
## chol (mean (sd)) 362.45714 (178.99332) 370.50201 (238.72656) 0.848
## albumin (mean (sd)) 3.53500 (0.45660) 3.49302 (0.42153) 0.536
## copper (mean (sd)) 154.27778 (100.66539) 90.20803 (80.73838) <0.001
## alk.phos (mean (sd)) 2172.95000 (2418.44624) 1957.83478 (2105.04905) 0.571
## ast (mean (sd)) 121.99056 (47.01310) 122.63014 (57.91665) 0.949
## trig (mean (sd)) 133.42857 (52.16844) 123.46559 (66.78096) 0.398
## platelet (mean (sd)) 231.13953 (85.22563) 260.08242 (99.41838) 0.068
## protime (mean (sd)) 10.94091 (0.93145) 10.70699 (1.03053) 0.151
## All nonnormal
print(contTable, nonnormal = TRUE)
## Stratified by sex
## m f p test
## n 44 374
## time (median [IQR]) 1507.00 [1060.75, 2715.75] 1773.00 [1095.50, 2606.25] 0.576 nonnorm
## age (median [IQR]) 54.00 [48.97, 64.58] 50.19 [42.38, 57.00] 0.003 nonnorm
## bili (median [IQR]) 2.05 [1.30, 3.50] 1.30 [0.70, 3.40] 0.029 nonnorm
## chol (median [IQR]) 317.00 [245.00, 426.50] 309.00 [252.00, 395.00] 0.945 nonnorm
## albumin (median [IQR]) 3.65 [3.33, 3.87] 3.52 [3.24, 3.77] 0.273 nonnorm
## copper (median [IQR]) 134.50 [80.75, 211.75] 67.00 [40.00, 111.75] <0.001 nonnorm
## alk.phos (median [IQR]) 1116.00 [852.00, 2313.00] 1270.50 [877.50, 1963.75] 0.945 nonnorm
## ast (median [IQR]) 121.68 [82.77, 153.45] 113.34 [80.60, 151.90] 0.718 nonnorm
## trig (median [IQR]) 126.00 [91.00, 163.00] 106.00 [84.00, 146.00] 0.100 nonnorm
## platelet (median [IQR]) 217.00 [165.50, 298.50] 252.50 [190.00, 319.00] 0.113 nonnorm
## protime (median [IQR]) 10.90 [10.28, 11.22] 10.60 [10.00, 11.10] 0.042 nonnorm
## quote
print(contTable, quote = TRUE)
## "Stratified by sex"
## "" "m" "f" "p" "test"
## "n" "44" "374" "" ""
## "time (mean (sd))" "1894.02 (1213.03)" "1920.58 (1092.95)" " 0.880" ""
## "age (mean (sd))" " 55.71 (10.98)" " 50.16 (10.24)" " 0.001" ""
## "bili (mean (sd))" " 2.87 (2.32)" " 3.26 (4.59)" " 0.573" ""
## "chol (mean (sd))" " 362.46 (178.99)" " 370.50 (238.73)" " 0.848" ""
## "albumin (mean (sd))" " 3.54 (0.46)" " 3.49 (0.42)" " 0.536" ""
## "copper (mean (sd))" " 154.28 (100.67)" " 90.21 (80.74)" "<0.001" ""
## "alk.phos (mean (sd))" "2172.95 (2418.45)" "1957.83 (2105.05)" " 0.571" ""
## "ast (mean (sd))" " 121.99 (47.01)" " 122.63 (57.92)" " 0.949" ""
## "trig (mean (sd))" " 133.43 (52.17)" " 123.47 (66.78)" " 0.398" ""
## "platelet (mean (sd))" " 231.14 (85.23)" " 260.08 (99.42)" " 0.068" ""
## "protime (mean (sd))" " 10.94 (0.93)" " 10.71 (1.03)" " 0.151" ""
## Partially nonnormal
print(contTable, nonnormal = nonNormalVars)
## Stratified by sex
## m f p test
## n 44 374
## time (mean (sd)) 1894.02 (1213.03) 1920.58 (1092.95) 0.880
## age (mean (sd)) 55.71 (10.98) 50.16 (10.24) 0.001
## bili (median [IQR]) 2.05 [1.30, 3.50] 1.30 [0.70, 3.40] 0.029 nonnorm
## chol (median [IQR]) 317.00 [245.00, 426.50] 309.00 [252.00, 395.00] 0.945 nonnorm
## albumin (mean (sd)) 3.54 (0.46) 3.49 (0.42) 0.536
## copper (median [IQR]) 134.50 [80.75, 211.75] 67.00 [40.00, 111.75] <0.001 nonnorm
## alk.phos (median [IQR]) 1116.00 [852.00, 2313.00] 1270.50 [877.50, 1963.75] 0.945 nonnorm
## ast (mean (sd)) 121.99 (47.01) 122.63 (57.92) 0.949
## trig (median [IQR]) 126.00 [91.00, 163.00] 106.00 [84.00, 146.00] 0.100 nonnorm
## platelet (mean (sd)) 231.14 (85.23) 260.08 (99.42) 0.068
## protime (median [IQR]) 10.90 [10.28, 11.22] 10.60 [10.00, 11.10] 0.042 nonnorm
## Partially nonnormal median [range]
print(contTable, nonnormal = nonNormalVars, minMax = TRUE)
## Stratified by sex
## m f p test
## n 44 374
## time (mean (sd)) 1894.02 (1213.03) 1920.58 (1092.95) 0.880
## age (mean (sd)) 55.71 (10.98) 50.16 (10.24) 0.001
## bili (median [range]) 2.05 [0.60, 9.50] 1.30 [0.30, 28.00] 0.029 nonnorm
## chol (median [range]) 317.00 [151.00, 1000.00] 309.00 [120.00, 1775.00] 0.945 nonnorm
## albumin (mean (sd)) 3.54 (0.46) 3.49 (0.42) 0.536
## copper (median [range]) 134.50 [13.00, 444.00] 67.00 [4.00, 588.00] <0.001 nonnorm
## alk.phos (median [range]) 1116.00 [516.00, 10396.80] 1270.50 [289.00, 13862.40] 0.945 nonnorm
## ast (mean (sd)) 121.99 (47.01) 122.63 (57.92) 0.949
## trig (median [range]) 126.00 [49.00, 242.00] 106.00 [33.00, 598.00] 0.100 nonnorm
## platelet (mean (sd)) 231.14 (85.23) 260.08 (99.42) 0.068
## protime (median [range]) 10.90 [9.70, 14.10] 10.60 [9.00, 18.00] 0.042 nonnorm
## test
print(contTable, test = FALSE)
## Stratified by sex
## m f
## n 44 374
## time (mean (sd)) 1894.02 (1213.03) 1920.58 (1092.95)
## age (mean (sd)) 55.71 (10.98) 50.16 (10.24)
## bili (mean (sd)) 2.87 (2.32) 3.26 (4.59)
## chol (mean (sd)) 362.46 (178.99) 370.50 (238.73)
## albumin (mean (sd)) 3.54 (0.46) 3.49 (0.42)
## copper (mean (sd)) 154.28 (100.67) 90.21 (80.74)
## alk.phos (mean (sd)) 2172.95 (2418.45) 1957.83 (2105.05)
## ast (mean (sd)) 121.99 (47.01) 122.63 (57.92)
## trig (mean (sd)) 133.43 (52.17) 123.47 (66.78)
## platelet (mean (sd)) 231.14 (85.23) 260.08 (99.42)
## protime (mean (sd)) 10.94 (0.93) 10.71 (1.03)
## pDigits
print(contTable, pDigits = 5)
## Stratified by sex
## m f p test
## n 44 374
## time (mean (sd)) 1894.02 (1213.03) 1920.58 (1092.95) 0.88032
## age (mean (sd)) 55.71 (10.98) 50.16 (10.24) 0.00080
## bili (mean (sd)) 2.87 (2.32) 3.26 (4.59) 0.57291
## chol (mean (sd)) 362.46 (178.99) 370.50 (238.73) 0.84803
## albumin (mean (sd)) 3.54 (0.46) 3.49 (0.42) 0.53604
## copper (mean (sd)) 154.28 (100.67) 90.21 (80.74) 0.00002
## alk.phos (mean (sd)) 2172.95 (2418.45) 1957.83 (2105.05) 0.57144
## ast (mean (sd)) 121.99 (47.01) 122.63 (57.92) 0.94937
## trig (mean (sd)) 133.43 (52.17) 123.47 (66.78) 0.39811
## platelet (mean (sd)) 231.14 (85.23) 260.08 (99.42) 0.06788
## protime (mean (sd)) 10.94 (0.93) 10.71 (1.03) 0.15132
## No explanation
print(contTable, explain = FALSE)
## Stratified by sex
## m f p test
## n 44 374
## time 1894.02 (1213.03) 1920.58 (1092.95) 0.880
## age 55.71 (10.98) 50.16 (10.24) 0.001
## bili 2.87 (2.32) 3.26 (4.59) 0.573
## chol 362.46 (178.99) 370.50 (238.73) 0.848
## albumin 3.54 (0.46) 3.49 (0.42) 0.536
## copper 154.28 (100.67) 90.21 (80.74) <0.001
## alk.phos 2172.95 (2418.45) 1957.83 (2105.05) 0.571
## ast 121.99 (47.01) 122.63 (57.92) 0.949
## trig 133.43 (52.17) 123.47 (66.78) 0.398
## platelet 231.14 (85.23) 260.08 (99.42) 0.068
## protime 10.94 (0.93) 10.71 (1.03) 0.151
### Behaviors on correct data format (stratified, 3-groups)
## Creation
contTable <- CreateContTable(vars = vars, strata = strata, data = dataFrame)
## print method
contTable
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.001
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.001
## bili (mean (sd)) 1.58 (1.91) 3.56 (3.60) 5.54 (5.84) <0.001
## chol (mean (sd)) 326.54 (165.80) 439.50 (335.54) 415.75 (275.03) 0.003
## albumin (mean (sd)) 3.59 (0.36) 3.49 (0.46) 3.36 (0.47) <0.001
## copper (mean (sd)) 66.61 (57.05) 124.00 (100.08) 135.41 (98.50) <0.001
## alk.phos (mean (sd)) 1578.13 (1633.07) 1535.21 (837.75) 2594.35 (2677.11) <0.001
## ast (mean (sd)) 107.29 (52.79) 130.12 (36.95) 141.93 (58.38) <0.001
## trig (mean (sd)) 111.79 (48.28) 133.94 (70.55) 140.49 (79.26) 0.001
## platelet (mean (sd)) 261.16 (88.61) 309.60 (102.65) 242.49 (107.88) 0.004
## protime (mean (sd)) 10.45 (0.92) 10.36 (0.54) 11.19 (1.05) <0.001
## summary method
summary(contTable)
## status: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 232 0 2333.2 994.66 2186.5 1456.5 2979.5 691.0 4795.0 0.59 -0.59
## age 232 0 49.5 10.43 49.8 41.4 56.8 26.3 78.4 0.10 -0.58
## bili 232 0 1.6 1.91 0.9 0.6 1.6 0.3 13.6 3.49 14.50
## chol 232 80 326.5 165.80 292.0 245.2 360.0 120.0 1480.0 4.30 24.79
## albumin 232 0 3.6 0.36 3.6 3.4 3.8 2.4 4.6 -0.21 0.44
## copper 232 65 66.6 57.05 52.0 33.5 77.5 4.0 412.0 3.07 13.52
## alk.phos 232 64 1578.1 1633.07 1107.5 794.0 1641.0 289.0 11046.6 3.59 14.68
## ast 232 64 107.3 52.79 94.5 71.3 129.0 26.4 457.2 2.38 11.22
## trig 232 81 111.8 48.28 104.0 80.0 133.5 44.0 382.0 1.72 5.92
## platelet 232 5 261.2 88.61 256.0 203.5 313.0 79.0 539.0 0.41 0.21
## protime 232 1 10.5 0.92 10.4 9.9 10.8 9.0 18.0 4.21 29.69
## ---------------------------------------------------------------------------------------
## status: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 25 0 1546.2 753.07 1435.0 901.0 2241.0 533.0 3092.0 0.596 -0.69
## age 25 0 41.7 6.33 41.0 36.5 47.2 33.0 56.0 0.470 -0.58
## bili 25 0 3.6 3.60 3.1 1.3 3.5 0.5 18.0 2.951 10.89
## chol 25 7 439.5 335.54 343.5 311.5 445.5 201.0 1712.0 3.553 13.79
## albumin 25 0 3.5 0.46 3.5 3.2 3.8 2.3 4.2 -0.531 0.31
## copper 25 6 124.0 100.08 102.0 69.0 129.5 32.0 444.0 2.250 5.62
## alk.phos 25 6 1535.2 837.75 1345.0 1028.5 1777.5 637.0 3681.0 1.470 1.84
## ast 25 6 130.1 36.95 127.0 113.9 151.1 54.2 205.0 0.088 0.31
## trig 25 7 133.9 70.55 124.0 85.8 145.8 33.0 322.0 1.249 1.76
## platelet 25 0 309.6 102.65 304.0 248.0 372.0 76.0 517.0 -0.112 0.20
## protime 25 0 10.4 0.54 10.3 10.0 10.7 9.6 11.4 0.516 -0.73
## ---------------------------------------------------------------------------------------
## status: 2
## n miss mean sd median p25 p75 min max skew kurt
## time 161 0 1376.9 1049.23 1083.0 597.0 2071.0 41.0 4191.0 0.833 -0.19
## age 161 0 53.9 9.81 53.5 46.6 61.3 30.9 76.7 -0.013 -0.56
## bili 161 0 5.5 5.84 3.2 1.4 7.1 0.3 28.0 1.684 2.36
## chol 161 47 415.8 275.03 339.0 257.5 454.0 127.0 1775.0 2.575 8.11
## albumin 161 0 3.4 0.47 3.4 3.1 3.6 2.0 4.5 -0.329 0.18
## copper 161 37 135.4 98.50 111.0 63.5 199.2 13.0 588.0 1.840 5.50
## alk.phos 161 36 2594.4 2677.11 1664.0 1029.0 2468.0 516.0 13862.4 2.300 5.08
## ast 161 36 141.9 58.38 134.8 99.3 176.7 28.4 338.0 0.808 0.98
## trig 161 48 140.5 79.26 122.0 91.0 171.0 49.0 598.0 2.505 10.29
## platelet 161 6 242.5 107.88 224.0 158.0 312.5 62.0 721.0 1.012 1.80
## protime 161 1 11.2 1.05 11.0 10.5 11.8 9.0 15.2 0.776 0.86
##
## p-values
## pNormal pNonNormal
## time 2.170e-18 1.070e-18
## age 4.513e-09 7.523e-09
## bili 4.006e-19 4.088e-26
## chol 3.118e-03 3.588e-03
## albumin 4.024e-07 2.875e-06
## copper 5.999e-12 2.935e-14
## alk.phos 1.655e-04 1.139e-05
## ast 7.554e-07 2.198e-08
## trig 1.401e-03 5.535e-03
## platelet 4.024e-03 8.025e-04
## protime 6.961e-13 1.987e-15
## Five digits
summary(contTable, digits = 5)
## status: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 232 0 2333.1552 994.65895 2186.500 1456.500 2979.5000 691.000 4795.000 0.59056 -0.58655
## age 232 0 49.5103 10.42672 49.817 41.384 56.7577 26.278 78.439 0.10065 -0.57612
## bili 232 0 1.5759 1.91026 0.900 0.600 1.6000 0.300 13.600 3.49318 14.50073
## chol 232 80 326.5395 165.79729 292.000 245.250 360.0000 120.000 1480.000 4.29636 24.78537
## albumin 232 0 3.5935 0.36041 3.600 3.360 3.8225 2.380 4.640 -0.21336 0.43831
## copper 232 65 66.6108 57.05418 52.000 33.500 77.5000 4.000 412.000 3.06883 13.51984
## alk.phos 232 64 1578.1274 1633.07092 1107.500 794.000 1641.0000 289.000 11046.600 3.59059 14.68030
## ast 232 64 107.2860 52.79321 94.550 71.300 128.9875 26.350 457.250 2.38181 11.21994
## trig 232 81 111.7881 48.27775 104.000 80.000 133.5000 44.000 382.000 1.71753 5.91846
## platelet 232 5 261.1586 88.60787 256.000 203.500 313.0000 79.000 539.000 0.40679 0.21168
## protime 232 1 10.4541 0.92458 10.400 9.900 10.8000 9.000 18.000 4.21195 29.69337
## ---------------------------------------------------------------------------------------
## status: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 25 0 1546.2000 753.07425 1435.000 901.000 2241.000 533.00 3092.000 0.596113 -0.69276
## age 25 0 41.6934 6.33435 40.999 36.493 47.181 32.95 55.986 0.470499 -0.58282
## bili 25 0 3.5560 3.59619 3.100 1.300 3.500 0.50 18.000 2.950805 10.88744
## chol 25 7 439.5000 335.53666 343.500 311.500 445.500 201.00 1712.000 3.553207 13.79115
## albumin 25 0 3.4876 0.45599 3.530 3.180 3.770 2.31 4.200 -0.530839 0.30509
## copper 25 6 124.0000 100.07830 102.000 69.000 129.500 32.00 444.000 2.250350 5.61963
## alk.phos 25 6 1535.2105 837.74808 1345.000 1028.500 1777.500 637.00 3681.000 1.469519 1.83947
## ast 25 6 130.1158 36.94593 127.000 113.925 151.125 54.25 205.000 0.088453 0.31448
## trig 25 7 133.9444 70.54700 124.000 85.750 145.750 33.00 322.000 1.248931 1.75650
## platelet 25 0 309.6000 102.65314 304.000 248.000 372.000 76.00 517.000 -0.112316 0.20185
## protime 25 0 10.3600 0.53697 10.300 10.000 10.700 9.60 11.400 0.516009 -0.73202
## ---------------------------------------------------------------------------------------
## status: 2
## n miss mean sd median p25 p75 min max skew kurt
## time 161 0 1376.9317 1049.22797 1083.000 597.000 2071.000 41.000 4191.000 0.832780 -0.18926
## age 161 0 53.9207 9.81423 53.498 46.628 61.295 30.864 76.709 -0.013216 -0.56233
## bili 161 0 5.5391 5.83710 3.200 1.400 7.100 0.300 28.000 1.683878 2.35585
## chol 161 47 415.7544 275.03076 339.000 257.500 454.000 127.000 1775.000 2.575250 8.11359
## albumin 161 0 3.3606 0.46875 3.400 3.080 3.650 1.960 4.520 -0.328598 0.18383
## copper 161 37 135.4113 98.49890 111.000 63.500 199.250 13.000 588.000 1.840411 5.50281
## alk.phos 161 36 2594.3536 2677.10859 1664.000 1029.000 2468.000 516.000 13862.400 2.300147 5.07611
## ast 161 36 141.9307 58.37952 134.850 99.330 176.700 28.380 338.000 0.807649 0.97760
## trig 161 48 140.4867 79.25818 122.000 91.000 171.000 49.000 598.000 2.505344 10.28687
## platelet 161 6 242.4903 107.87615 224.000 158.000 312.500 62.000 721.000 1.012383 1.80442
## protime 161 1 11.1906 1.04904 11.000 10.475 11.800 9.000 15.200 0.776316 0.85574
##
## p-values
## pNormal pNonNormal
## time 2.170e-18 1.070e-18
## age 4.513e-09 7.523e-09
## bili 4.006e-19 4.088e-26
## chol 3.118e-03 3.588e-03
## albumin 4.024e-07 2.875e-06
## copper 5.999e-12 2.935e-14
## alk.phos 1.655e-04 1.139e-05
## ast 7.554e-07 2.198e-08
## trig 1.401e-03 5.535e-03
## platelet 4.024e-03 8.025e-04
## protime 6.961e-13 1.987e-15
## print method by default
print(contTable)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.001
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.001
## bili (mean (sd)) 1.58 (1.91) 3.56 (3.60) 5.54 (5.84) <0.001
## chol (mean (sd)) 326.54 (165.80) 439.50 (335.54) 415.75 (275.03) 0.003
## albumin (mean (sd)) 3.59 (0.36) 3.49 (0.46) 3.36 (0.47) <0.001
## copper (mean (sd)) 66.61 (57.05) 124.00 (100.08) 135.41 (98.50) <0.001
## alk.phos (mean (sd)) 1578.13 (1633.07) 1535.21 (837.75) 2594.35 (2677.11) <0.001
## ast (mean (sd)) 107.29 (52.79) 130.12 (36.95) 141.93 (58.38) <0.001
## trig (mean (sd)) 111.79 (48.28) 133.94 (70.55) 140.49 (79.26) 0.001
## platelet (mean (sd)) 261.16 (88.61) 309.60 (102.65) 242.49 (107.88) 0.004
## protime (mean (sd)) 10.45 (0.92) 10.36 (0.54) 11.19 (1.05) <0.001
## Five digits
print(contTable, digits = 5)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## time (mean (sd)) 2333.15517 (994.65895) 1546.20000 (753.07425) 1376.93168 (1049.22797) <0.001
## age (mean (sd)) 49.51034 (10.42672) 41.69342 (6.33435) 53.92071 (9.81423) <0.001
## bili (mean (sd)) 1.57586 (1.91026) 3.55600 (3.59619) 5.53913 (5.83710) <0.001
## chol (mean (sd)) 326.53947 (165.79729) 439.50000 (335.53666) 415.75439 (275.03076) 0.003
## albumin (mean (sd)) 3.59349 (0.36041) 3.48760 (0.45599) 3.36056 (0.46875) <0.001
## copper (mean (sd)) 66.61078 (57.05418) 124.00000 (100.07830) 135.41129 (98.49890) <0.001
## alk.phos (mean (sd)) 1578.12738 (1633.07092) 1535.21053 (837.74808) 2594.35360 (2677.10859) <0.001
## ast (mean (sd)) 107.28595 (52.79321) 130.11579 (36.94593) 141.93072 (58.37952) <0.001
## trig (mean (sd)) 111.78808 (48.27775) 133.94444 (70.54700) 140.48673 (79.25818) 0.001
## platelet (mean (sd)) 261.15859 (88.60787) 309.60000 (102.65314) 242.49032 (107.87615) 0.004
## protime (mean (sd)) 10.45411 (0.92458) 10.36000 (0.53697) 11.19063 (1.04904) <0.001
## All nonnormal
print(contTable, nonnormal = TRUE)
## Stratified by status
## 0 1 2 p
## n 232 25 161
## time (median [IQR]) 2186.50 [1456.50, 2979.50] 1435.00 [901.00, 2241.00] 1083.00 [597.00, 2071.00] <0.001
## age (median [IQR]) 49.82 [41.38, 56.76] 41.00 [36.49, 47.18] 53.50 [46.63, 61.30] <0.001
## bili (median [IQR]) 0.90 [0.60, 1.60] 3.10 [1.30, 3.50] 3.20 [1.40, 7.10] <0.001
## chol (median [IQR]) 292.00 [245.25, 360.00] 343.50 [311.50, 445.50] 339.00 [257.50, 454.00] 0.004
## albumin (median [IQR]) 3.60 [3.36, 3.82] 3.53 [3.18, 3.77] 3.40 [3.08, 3.65] <0.001
## copper (median [IQR]) 52.00 [33.50, 77.50] 102.00 [69.00, 129.50] 111.00 [63.50, 199.25] <0.001
## alk.phos (median [IQR]) 1107.50 [794.00, 1641.00] 1345.00 [1028.50, 1777.50] 1664.00 [1029.00, 2468.00] <0.001
## ast (median [IQR]) 94.55 [71.30, 128.99] 127.00 [113.93, 151.12] 134.85 [99.33, 176.70] <0.001
## trig (median [IQR]) 104.00 [80.00, 133.50] 124.00 [85.75, 145.75] 122.00 [91.00, 171.00] 0.006
## platelet (median [IQR]) 256.00 [203.50, 313.00] 304.00 [248.00, 372.00] 224.00 [158.00, 312.50] 0.001
## protime (median [IQR]) 10.40 [9.90, 10.80] 10.30 [10.00, 10.70] 11.00 [10.47, 11.80] <0.001
## Stratified by status
## test
## n
## time (median [IQR]) nonnorm
## age (median [IQR]) nonnorm
## bili (median [IQR]) nonnorm
## chol (median [IQR]) nonnorm
## albumin (median [IQR]) nonnorm
## copper (median [IQR]) nonnorm
## alk.phos (median [IQR]) nonnorm
## ast (median [IQR]) nonnorm
## trig (median [IQR]) nonnorm
## platelet (median [IQR]) nonnorm
## protime (median [IQR]) nonnorm
## quote
print(contTable, quote = TRUE)
## "Stratified by status"
## "" "0" "1" "2" "p" "test"
## "n" "232" "25" "161" "" ""
## "time (mean (sd))" "2333.16 (994.66)" "1546.20 (753.07)" "1376.93 (1049.23)" "<0.001" ""
## "age (mean (sd))" " 49.51 (10.43)" " 41.69 (6.33)" " 53.92 (9.81)" "<0.001" ""
## "bili (mean (sd))" " 1.58 (1.91)" " 3.56 (3.60)" " 5.54 (5.84)" "<0.001" ""
## "chol (mean (sd))" " 326.54 (165.80)" " 439.50 (335.54)" " 415.75 (275.03)" " 0.003" ""
## "albumin (mean (sd))" " 3.59 (0.36)" " 3.49 (0.46)" " 3.36 (0.47)" "<0.001" ""
## "copper (mean (sd))" " 66.61 (57.05)" " 124.00 (100.08)" " 135.41 (98.50)" "<0.001" ""
## "alk.phos (mean (sd))" "1578.13 (1633.07)" "1535.21 (837.75)" "2594.35 (2677.11)" "<0.001" ""
## "ast (mean (sd))" " 107.29 (52.79)" " 130.12 (36.95)" " 141.93 (58.38)" "<0.001" ""
## "trig (mean (sd))" " 111.79 (48.28)" " 133.94 (70.55)" " 140.49 (79.26)" " 0.001" ""
## "platelet (mean (sd))" " 261.16 (88.61)" " 309.60 (102.65)" " 242.49 (107.88)" " 0.004" ""
## "protime (mean (sd))" " 10.45 (0.92)" " 10.36 (0.54)" " 11.19 (1.05)" "<0.001" ""
## Partially nonnormal
print(contTable, nonnormal = nonNormalVars)
## Stratified by status
## 0 1 2 p
## n 232 25 161
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.001
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.001
## bili (median [IQR]) 0.90 [0.60, 1.60] 3.10 [1.30, 3.50] 3.20 [1.40, 7.10] <0.001
## chol (median [IQR]) 292.00 [245.25, 360.00] 343.50 [311.50, 445.50] 339.00 [257.50, 454.00] 0.004
## albumin (mean (sd)) 3.59 (0.36) 3.49 (0.46) 3.36 (0.47) <0.001
## copper (median [IQR]) 52.00 [33.50, 77.50] 102.00 [69.00, 129.50] 111.00 [63.50, 199.25] <0.001
## alk.phos (median [IQR]) 1107.50 [794.00, 1641.00] 1345.00 [1028.50, 1777.50] 1664.00 [1029.00, 2468.00] <0.001
## ast (mean (sd)) 107.29 (52.79) 130.12 (36.95) 141.93 (58.38) <0.001
## trig (median [IQR]) 104.00 [80.00, 133.50] 124.00 [85.75, 145.75] 122.00 [91.00, 171.00] 0.006
## platelet (mean (sd)) 261.16 (88.61) 309.60 (102.65) 242.49 (107.88) 0.004
## protime (median [IQR]) 10.40 [9.90, 10.80] 10.30 [10.00, 10.70] 11.00 [10.47, 11.80] <0.001
## Stratified by status
## test
## n
## time (mean (sd))
## age (mean (sd))
## bili (median [IQR]) nonnorm
## chol (median [IQR]) nonnorm
## albumin (mean (sd))
## copper (median [IQR]) nonnorm
## alk.phos (median [IQR]) nonnorm
## ast (mean (sd))
## trig (median [IQR]) nonnorm
## platelet (mean (sd))
## protime (median [IQR]) nonnorm
## Partially nonnormal median [range]
print(contTable, nonnormal = nonNormalVars, minMax = TRUE)
## Stratified by status
## 0 1 2 p
## n 232 25 161
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.001
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.001
## bili (median [range]) 0.90 [0.30, 13.60] 3.10 [0.50, 18.00] 3.20 [0.30, 28.00] <0.001
## chol (median [range]) 292.00 [120.00, 1480.00] 343.50 [201.00, 1712.00] 339.00 [127.00, 1775.00] 0.004
## albumin (mean (sd)) 3.59 (0.36) 3.49 (0.46) 3.36 (0.47) <0.001
## copper (median [range]) 52.00 [4.00, 412.00] 102.00 [32.00, 444.00] 111.00 [13.00, 588.00] <0.001
## alk.phos (median [range]) 1107.50 [289.00, 11046.60] 1345.00 [637.00, 3681.00] 1664.00 [516.00, 13862.40] <0.001
## ast (mean (sd)) 107.29 (52.79) 130.12 (36.95) 141.93 (58.38) <0.001
## trig (median [range]) 104.00 [44.00, 382.00] 124.00 [33.00, 322.00] 122.00 [49.00, 598.00] 0.006
## platelet (mean (sd)) 261.16 (88.61) 309.60 (102.65) 242.49 (107.88) 0.004
## protime (median [range]) 10.40 [9.00, 18.00] 10.30 [9.60, 11.40] 11.00 [9.00, 15.20] <0.001
## Stratified by status
## test
## n
## time (mean (sd))
## age (mean (sd))
## bili (median [range]) nonnorm
## chol (median [range]) nonnorm
## albumin (mean (sd))
## copper (median [range]) nonnorm
## alk.phos (median [range]) nonnorm
## ast (mean (sd))
## trig (median [range]) nonnorm
## platelet (mean (sd))
## protime (median [range]) nonnorm
## test
print(contTable, test = FALSE)
## Stratified by status
## 0 1 2
## n 232 25 161
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23)
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81)
## bili (mean (sd)) 1.58 (1.91) 3.56 (3.60) 5.54 (5.84)
## chol (mean (sd)) 326.54 (165.80) 439.50 (335.54) 415.75 (275.03)
## albumin (mean (sd)) 3.59 (0.36) 3.49 (0.46) 3.36 (0.47)
## copper (mean (sd)) 66.61 (57.05) 124.00 (100.08) 135.41 (98.50)
## alk.phos (mean (sd)) 1578.13 (1633.07) 1535.21 (837.75) 2594.35 (2677.11)
## ast (mean (sd)) 107.29 (52.79) 130.12 (36.95) 141.93 (58.38)
## trig (mean (sd)) 111.79 (48.28) 133.94 (70.55) 140.49 (79.26)
## platelet (mean (sd)) 261.16 (88.61) 309.60 (102.65) 242.49 (107.88)
## protime (mean (sd)) 10.45 (0.92) 10.36 (0.54) 11.19 (1.05)
## pDigits
print(contTable, pDigits = 5)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.00001
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.00001
## bili (mean (sd)) 1.58 (1.91) 3.56 (3.60) 5.54 (5.84) <0.00001
## chol (mean (sd)) 326.54 (165.80) 439.50 (335.54) 415.75 (275.03) 0.00312
## albumin (mean (sd)) 3.59 (0.36) 3.49 (0.46) 3.36 (0.47) <0.00001
## copper (mean (sd)) 66.61 (57.05) 124.00 (100.08) 135.41 (98.50) <0.00001
## alk.phos (mean (sd)) 1578.13 (1633.07) 1535.21 (837.75) 2594.35 (2677.11) 0.00017
## ast (mean (sd)) 107.29 (52.79) 130.12 (36.95) 141.93 (58.38) <0.00001
## trig (mean (sd)) 111.79 (48.28) 133.94 (70.55) 140.49 (79.26) 0.00140
## platelet (mean (sd)) 261.16 (88.61) 309.60 (102.65) 242.49 (107.88) 0.00402
## protime (mean (sd)) 10.45 (0.92) 10.36 (0.54) 11.19 (1.05) <0.00001
## No explanation
print(contTable, explain = FALSE)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## time 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.001
## age 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.001
## bili 1.58 (1.91) 3.56 (3.60) 5.54 (5.84) <0.001
## chol 326.54 (165.80) 439.50 (335.54) 415.75 (275.03) 0.003
## albumin 3.59 (0.36) 3.49 (0.46) 3.36 (0.47) <0.001
## copper 66.61 (57.05) 124.00 (100.08) 135.41 (98.50) <0.001
## alk.phos 1578.13 (1633.07) 1535.21 (837.75) 2594.35 (2677.11) <0.001
## ast 107.29 (52.79) 130.12 (36.95) 141.93 (58.38) <0.001
## trig 111.79 (48.28) 133.94 (70.55) 140.49 (79.26) 0.001
## platelet 261.16 (88.61) 309.60 (102.65) 242.49 (107.88) 0.004
## protime 10.45 (0.92) 10.36 (0.54) 11.19 (1.05) <0.001
### Behaviors on correct data format (stratified, 2-variables)
## Two variables
contTable <- CreateContTable(vars = vars, strata = strataTwoVars, data = dataFrame)
## print method
contTable
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f
## n 17 3 24 215 22
## time (mean (sd)) 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46) 2322.95 (977.61) 1600.55 (750.70)
## age (mean (sd)) 55.69 (10.65) 42.16 (11.97) 57.42 (10.34) 49.02 (10.28) 41.63 (5.67)
## bili (mean (sd)) 2.63 (2.62) 2.37 (1.15) 3.10 (2.25) 1.49 (1.83) 3.72 (3.80)
## chol (mean (sd)) 367.91 (234.99) 415.33 (201.32) 352.05 (149.18) 323.31 (159.87) 444.33 (361.62)
## albumin (mean (sd)) 3.47 (0.43) 3.75 (0.28) 3.55 (0.50) 3.60 (0.35) 3.45 (0.47)
## copper (mean (sd)) 128.82 (113.07) 215.33 (198.03) 158.68 (78.57) 62.22 (48.66) 106.88 (69.34)
## alk.phos (mean (sd)) 2482.25 (3052.94) 921.00 (196.50) 2189.02 (2243.18) 1514.78 (1481.83) 1650.38 (864.55)
## ast (mean (sd)) 112.28 (50.94) 110.73 (30.99) 128.38 (47.39) 106.94 (53.06) 133.75 (37.69)
## trig (mean (sd)) 131.82 (33.73) 165.00 (64.58) 129.76 (58.95) 110.21 (48.98) 127.73 (72.11)
## platelet (mean (sd)) 213.44 (72.17) 289.00 (65.18) 235.71 (93.92) 264.78 (88.83) 312.41 (107.56)
## protime (mean (sd)) 10.94 (0.80) 10.73 (0.51) 10.97 (1.07) 10.42 (0.92) 10.31 (0.53)
## Stratified by status:sex
## 2:f p test
## n 137
## time (mean (sd)) 1340.50 (1036.28) <0.001
## age (mean (sd)) 53.31 (9.63) <0.001
## bili (mean (sd)) 5.97 (6.16) <0.001
## chol (mean (sd)) 430.14 (294.85) 0.016
## albumin (mean (sd)) 3.33 (0.46) <0.001
## copper (mean (sd)) 130.39 (101.92) <0.001
## alk.phos (mean (sd)) 2680.93 (2762.92) 0.001
## ast (mean (sd)) 144.82 (60.27) <0.001
## trig (mean (sd)) 142.93 (83.28) 0.007
## platelet (mean (sd)) 243.73 (110.52) 0.009
## protime (mean (sd)) 11.23 (1.04) <0.001
## summary method
summary(contTable)
## status: 0
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 17 0 2462.2 1217.33 1899.0 1419.0 3445.0 1129.0 4459.0 0.581 -1.28
## age 17 0 55.7 10.65 52.9 49.1 61.0 41.0 78.4 0.818 -0.03
## bili 17 0 2.6 2.62 1.7 0.9 3.0 0.6 8.6 1.345 0.41
## chol 17 6 367.9 234.99 252.0 242.5 403.0 216.0 1000.0 2.304 5.61
## albumin 17 0 3.5 0.43 3.6 3.1 3.7 2.4 4.1 -0.937 1.18
## copper 17 6 128.8 113.07 84.0 57.0 168.0 25.0 380.0 1.380 1.25
## alk.phos 17 6 2482.3 3052.94 1098.0 913.0 2311.0 601.0 10396.8 2.175 4.50
## ast 17 6 112.3 50.94 108.5 62.8 142.6 56.8 193.0 0.446 -1.14
## trig 17 6 131.8 33.73 128.0 112.5 153.5 83.0 188.0 0.274 -0.75
## platelet 17 1 213.4 72.17 212.5 170.5 267.0 92.0 336.0 -0.066 -0.72
## protime 17 0 10.9 0.80 10.9 10.6 11.2 9.8 13.0 1.077 1.92
## ---------------------------------------------------------------------------------------
## status: 1
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 3 0 1147.7 785.78 877.0 705.0 1455.0 533.0 2033.0 1.37 NaN
## age 3 0 42.2 11.97 35.4 35.3 45.7 35.2 56.0 1.73 NaN
## bili 3 0 2.4 1.15 2.4 1.8 3.0 1.2 3.5 -0.13 NaN
## chol 3 0 415.3 201.32 325.0 300.0 485.5 275.0 646.0 1.61 NaN
## albumin 3 0 3.7 0.28 3.8 3.6 3.9 3.4 4.0 -1.21 NaN
## copper 3 0 215.3 198.03 102.0 101.0 273.0 100.0 444.0 1.73 NaN
## alk.phos 3 0 921.0 196.50 855.0 810.5 998.5 766.0 1142.0 1.34 NaN
## ast 3 0 110.7 30.99 127.0 101.0 128.6 75.0 130.2 -1.71 NaN
## trig 3 0 165.0 64.58 194.0 142.5 202.0 91.0 210.0 -1.61 NaN
## platelet 3 0 289.0 65.18 306.0 261.5 325.0 217.0 344.0 -1.09 NaN
## protime 3 0 10.7 0.51 10.6 10.4 10.9 10.3 11.3 1.09 NaN
## ---------------------------------------------------------------------------------------
## status: 2
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 24 0 1584.9 1120.5 1257.0 867.2 1906.0 140.0 4191.0 1.112 0.55
## age 24 0 57.4 10.3 57.6 51.1 67.5 33.5 71.9 -0.403 -0.57
## bili 24 0 3.1 2.2 2.3 1.6 3.6 0.8 9.5 1.586 1.97
## chol 24 3 352.0 149.2 331.0 247.0 426.0 151.0 660.0 0.516 -0.44
## albumin 24 0 3.6 0.5 3.7 3.3 3.9 2.3 4.3 -0.947 0.81
## copper 24 2 158.7 78.6 165.0 96.8 215.2 13.0 290.0 -0.113 -0.99
## alk.phos 24 2 2189.0 2243.2 1452.0 973.8 2387.0 516.0 10165.0 2.551 7.32
## ast 24 2 128.4 47.4 124.8 88.5 170.5 46.5 221.9 0.313 -0.74
## trig 24 3 129.8 59.0 122.0 91.0 155.0 49.0 242.0 0.587 -0.69
## platelet 24 0 235.7 93.9 225.5 154.8 328.0 70.0 394.0 0.012 -1.17
## protime 24 0 11.0 1.1 10.9 10.2 11.3 9.7 14.1 1.391 2.25
## ---------------------------------------------------------------------------------------
## status: 0
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 215 0 2323.0 977.61 2195.0 1469.0 2917.5 691.0 4795.0 0.582 -0.53
## age 215 0 49.0 10.28 49.0 40.9 56.6 26.3 75.0 0.034 -0.78
## bili 215 0 1.5 1.83 0.9 0.6 1.4 0.3 13.6 3.915 18.58
## chol 215 74 323.3 159.87 294.0 246.0 360.0 120.0 1480.0 4.679 29.79
## albumin 215 0 3.6 0.35 3.6 3.4 3.8 2.5 4.6 -0.100 0.23
## copper 215 59 62.2 48.66 51.5 33.0 75.2 4.0 412.0 3.148 17.31
## alk.phos 215 58 1514.8 1481.83 1110.0 794.0 1637.0 289.0 11046.6 3.748 16.82
## ast 215 58 106.9 53.06 93.0 72.8 128.7 26.4 457.2 2.496 11.92
## trig 215 75 110.2 48.98 101.0 76.8 133.0 44.0 382.0 1.821 6.26
## platelet 215 4 264.8 88.83 256.0 209.0 317.5 79.0 539.0 0.402 0.19
## protime 215 1 10.4 0.92 10.3 9.9 10.7 9.0 18.0 4.532 32.79
## ---------------------------------------------------------------------------------------
## status: 1
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 22 0 1600.5 750.70 1441.0 1033.2 2260.5 617.0 3092.0 0.6083 -0.732
## age 22 0 41.6 5.67 41.1 37.3 47.0 33.0 52.0 0.1106 -1.025
## bili 22 0 3.7 3.80 3.2 1.4 4.2 0.5 18.0 2.7703 9.541
## chol 22 7 444.3 361.62 348.0 313.0 441.0 201.0 1712.0 3.4838 12.875
## albumin 22 0 3.5 0.47 3.5 3.1 3.8 2.3 4.2 -0.3997 0.202
## copper 22 6 106.9 69.34 98.0 58.5 126.2 32.0 308.0 1.6840 3.927
## alk.phos 22 6 1650.4 864.55 1407.0 1131.8 1932.0 637.0 3681.0 1.2790 1.262
## ast 22 6 133.8 37.69 124.0 114.3 153.5 54.2 205.0 0.0088 0.355
## trig 22 7 127.7 72.11 118.0 81.0 142.0 33.0 322.0 1.6287 3.156
## platelet 22 0 312.4 107.56 301.0 252.0 384.0 76.0 517.0 -0.1674 0.053
## protime 22 0 10.3 0.53 10.1 10.0 10.6 9.6 11.4 0.6395 -0.557
## ---------------------------------------------------------------------------------------
## status: 2
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 137 0 1340.5 1036.28 1037.0 549.0 2071.0 41.0 3853.0 0.783 -0.37
## age 137 0 53.3 9.63 53.0 46.4 60.7 30.9 76.7 0.032 -0.46
## bili 137 0 6.0 6.16 3.4 1.4 7.3 0.3 28.0 1.501 1.61
## chol 137 44 430.1 294.85 344.0 260.0 468.0 127.0 1775.0 2.454 6.88
## albumin 137 0 3.3 0.46 3.4 3.1 3.6 2.0 4.5 -0.271 0.35
## copper 137 35 130.4 101.92 102.5 58.0 172.8 14.0 588.0 2.102 6.35
## alk.phos 137 34 2680.9 2762.92 1787.0 1057.0 2562.0 559.0 13862.4 2.258 4.81
## ast 137 34 144.8 60.27 136.7 102.9 177.5 28.4 338.0 0.809 0.93
## trig 137 45 142.9 83.28 121.0 91.8 171.2 50.0 598.0 2.581 10.13
## platelet 137 6 243.7 110.52 224.0 160.0 304.0 62.0 721.0 1.106 1.97
## protime 137 1 11.2 1.04 11.1 10.6 11.8 9.0 15.2 0.695 0.84
##
## p-values
## pNormal pNonNormal
## time 1.891e-16 1.128e-16
## age 2.380e-09 1.699e-08
## bili 2.610e-19 1.499e-24
## chol 1.615e-02 4.032e-02
## albumin 2.891e-07 1.164e-06
## copper 6.640e-13 3.932e-14
## alk.phos 8.635e-04 7.643e-05
## ast 1.309e-05 6.230e-07
## trig 7.392e-03 7.804e-03
## platelet 8.655e-03 2.246e-03
## protime 3.480e-12 1.221e-15
## Five digits
summary(contTable, digits = 5)
## status: 0
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 17 0 2462.1765 1217.32721 1899.00 1419.000 3445.000 1129.000 4459.000 0.580553 -1.275652
## age 17 0 55.6860 10.64563 52.89 49.136 60.999 40.999 78.439 0.817549 -0.029683
## bili 17 0 2.6294 2.61576 1.70 0.900 3.000 0.600 8.600 1.345458 0.408840
## chol 17 6 367.9091 234.98572 252.00 242.500 403.000 216.000 1000.000 2.303585 5.609269
## albumin 17 0 3.4718 0.42631 3.59 3.150 3.730 2.380 4.080 -0.937381 1.179027
## copper 17 6 128.8182 113.07238 84.00 57.000 168.000 25.000 380.000 1.380101 1.250490
## alk.phos 17 6 2482.2545 3052.93587 1098.00 913.000 2311.000 601.000 10396.800 2.174870 4.499362
## ast 17 6 112.2773 50.94183 108.50 62.775 142.550 56.760 193.000 0.446108 -1.139098
## trig 17 6 131.8182 33.72779 128.00 112.500 153.500 83.000 188.000 0.274446 -0.745906
## platelet 17 1 213.4375 72.17291 212.50 170.500 267.000 92.000 336.000 -0.066326 -0.721429
## protime 17 0 10.9412 0.79926 10.90 10.600 11.200 9.800 13.000 1.076701 1.924353
## ---------------------------------------------------------------------------------------
## status: 1
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 3 0 1147.6667 785.77690 877.000 705.000 1455.000 533.000 2033.000 1.36614 NaN
## age 3 0 42.1629 11.97184 35.351 35.251 45.669 35.151 55.986 1.73151 NaN
## bili 3 0 2.3667 1.15036 2.400 1.800 2.950 1.200 3.500 -0.13028 NaN
## chol 3 0 415.3333 201.32147 325.000 300.000 485.500 275.000 646.000 1.61263 NaN
## albumin 3 0 3.7467 0.28431 3.830 3.630 3.905 3.430 3.980 -1.20566 NaN
## copper 3 0 215.3333 198.03367 102.000 101.000 273.000 100.000 444.000 1.73185 NaN
## alk.phos 3 0 921.0000 196.49682 855.000 810.500 998.500 766.000 1142.000 1.34095 NaN
## ast 3 0 110.7333 30.98731 127.000 101.000 128.600 75.000 130.200 -1.71129 NaN
## trig 3 0 165.0000 64.58328 194.000 142.500 202.000 91.000 210.000 -1.61322 NaN
## platelet 3 0 289.0000 65.18435 306.000 261.500 325.000 217.000 344.000 -1.09377 NaN
## protime 3 0 10.7333 0.51316 10.600 10.450 10.950 10.300 11.300 1.09029 NaN
## ---------------------------------------------------------------------------------------
## status: 2
## sex: m
## n miss mean sd median p25 p75 min max skew kurt
## time 24 0 1584.8750 1120.46063 1257.000 867.2500 1906.0000 140.000 4191.000 1.111794 0.54917
## age 24 0 57.4217 10.34449 57.587 51.0726 67.4517 33.476 71.893 -0.402994 -0.57012
## bili 24 0 3.0958 2.24818 2.300 1.5750 3.6250 0.800 9.500 1.585959 1.97358
## chol 24 3 352.0476 149.17757 331.000 247.0000 426.0000 151.000 660.000 0.515581 -0.44479
## albumin 24 0 3.5533 0.49715 3.665 3.3275 3.9325 2.270 4.300 -0.946851 0.80931
## copper 24 2 158.6818 78.57201 165.000 96.7500 215.2500 13.000 290.000 -0.113305 -0.99399
## alk.phos 24 2 2189.0182 2243.18335 1452.000 973.7500 2387.0000 516.000 10165.000 2.551074 7.31597
## ast 24 2 128.3823 47.39408 124.775 88.5250 170.5000 46.500 221.880 0.313131 -0.73906
## trig 24 3 129.7619 58.95499 122.000 91.0000 155.0000 49.000 242.000 0.586741 -0.68788
## platelet 24 0 235.7083 93.91785 225.500 154.7500 328.0000 70.000 394.000 0.012464 -1.16878
## protime 24 0 10.9667 1.07164 10.950 10.1750 11.3250 9.700 14.100 1.390936 2.25229
## ---------------------------------------------------------------------------------------
## status: 0
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 215 0 2322.9535 977.60792 2195.000 1469.000 2917.500 691.000 4795.000 0.582318 -0.53007
## age 215 0 49.0220 10.27669 48.999 40.895 56.600 26.278 75.012 0.033629 -0.78458
## bili 215 0 1.4926 1.82545 0.900 0.600 1.450 0.300 13.600 3.914967 18.57538
## chol 215 74 323.3121 159.87321 294.000 246.000 360.000 120.000 1480.000 4.678667 29.78599
## albumin 215 0 3.6031 0.35405 3.600 3.370 3.825 2.480 4.640 -0.100353 0.23378
## copper 215 59 62.2244 48.65528 51.500 33.000 75.250 4.000 412.000 3.148308 17.31419
## alk.phos 215 58 1514.7809 1481.83371 1110.000 794.000 1637.000 289.000 11046.600 3.748137 16.81930
## ast 215 58 106.9362 53.06053 93.000 72.850 128.650 26.350 457.250 2.495647 11.91733
## trig 215 75 110.2143 48.98066 101.000 76.750 133.000 44.000 382.000 1.821197 6.26465
## platelet 215 4 264.7773 88.83030 256.000 209.000 317.500 79.000 539.000 0.402233 0.19191
## protime 215 1 10.4154 0.92447 10.300 9.900 10.700 9.000 18.000 4.531750 32.78717
## ---------------------------------------------------------------------------------------
## status: 1
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 22 0 1600.5455 750.69959 1441.000 1033.250 2260.5000 617.00 3092.0 0.6082827 -0.732399
## age 22 0 41.6294 5.67188 41.076 37.276 46.9815 32.95 52.0 0.1106357 -1.025452
## bili 22 0 3.7182 3.79795 3.150 1.375 4.1750 0.50 18.0 2.7702682 9.541192
## chol 22 7 444.3333 361.62128 348.000 313.000 441.0000 201.00 1712.0 3.4838018 12.874590
## albumin 22 0 3.4523 0.46801 3.520 3.135 3.7575 2.31 4.2 -0.3996645 0.202256
## copper 22 6 106.8750 69.34443 98.000 58.500 126.2500 32.00 308.0 1.6840068 3.926654
## alk.phos 22 6 1650.3750 864.54619 1407.000 1131.750 1932.0000 637.00 3681.0 1.2790073 1.261894
## ast 22 6 133.7500 37.69283 124.000 114.312 153.4500 54.25 205.0 0.0087982 0.354826
## trig 22 7 127.7333 72.10753 118.000 81.000 142.0000 33.00 322.0 1.6286698 3.156473
## platelet 22 0 312.4091 107.56157 301.000 252.000 384.0000 76.00 517.0 -0.1674101 0.053235
## protime 22 0 10.3091 0.53087 10.100 10.000 10.6500 9.60 11.4 0.6395260 -0.557078
## ---------------------------------------------------------------------------------------
## status: 2
## sex: f
## n miss mean sd median p25 p75 min max skew kurt
## time 137 0 1340.5036 1036.27652 1037.000 549.00 2071.000 41.000 3853.000 0.782925 -0.36646
## age 137 0 53.3074 9.62692 52.999 46.39 60.706 30.864 76.709 0.031561 -0.46043
## bili 137 0 5.9672 6.16374 3.400 1.40 7.300 0.300 28.000 1.500648 1.60901
## chol 137 44 430.1398 294.84674 344.000 260.00 468.000 127.000 1775.000 2.453714 6.88168
## albumin 137 0 3.3268 0.45716 3.360 3.08 3.600 1.960 4.520 -0.270966 0.35446
## copper 137 35 130.3922 101.92321 102.500 58.00 172.750 14.000 588.000 2.101921 6.35488
## alk.phos 137 34 2680.9301 2762.92155 1787.000 1057.00 2562.000 559.000 13862.400 2.257705 4.80501
## ast 137 34 144.8246 60.27241 136.740 102.88 177.475 28.380 338.000 0.809307 0.92783
## trig 137 45 142.9348 83.27682 121.000 91.75 171.250 50.000 598.000 2.580792 10.13232
## platelet 137 6 243.7328 110.52183 224.000 160.00 304.000 62.000 721.000 1.106298 1.97335
## protime 137 1 11.2301 1.04402 11.050 10.60 11.800 9.000 15.200 0.694927 0.83719
##
## p-values
## pNormal pNonNormal
## time 1.891e-16 1.128e-16
## age 2.380e-09 1.699e-08
## bili 2.610e-19 1.499e-24
## chol 1.615e-02 4.032e-02
## albumin 2.891e-07 1.164e-06
## copper 6.640e-13 3.932e-14
## alk.phos 8.635e-04 7.643e-05
## ast 1.309e-05 6.230e-07
## trig 7.392e-03 7.804e-03
## platelet 8.655e-03 2.246e-03
## protime 3.480e-12 1.221e-15
## print method by default
print(contTable)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f
## n 17 3 24 215 22
## time (mean (sd)) 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46) 2322.95 (977.61) 1600.55 (750.70)
## age (mean (sd)) 55.69 (10.65) 42.16 (11.97) 57.42 (10.34) 49.02 (10.28) 41.63 (5.67)
## bili (mean (sd)) 2.63 (2.62) 2.37 (1.15) 3.10 (2.25) 1.49 (1.83) 3.72 (3.80)
## chol (mean (sd)) 367.91 (234.99) 415.33 (201.32) 352.05 (149.18) 323.31 (159.87) 444.33 (361.62)
## albumin (mean (sd)) 3.47 (0.43) 3.75 (0.28) 3.55 (0.50) 3.60 (0.35) 3.45 (0.47)
## copper (mean (sd)) 128.82 (113.07) 215.33 (198.03) 158.68 (78.57) 62.22 (48.66) 106.88 (69.34)
## alk.phos (mean (sd)) 2482.25 (3052.94) 921.00 (196.50) 2189.02 (2243.18) 1514.78 (1481.83) 1650.38 (864.55)
## ast (mean (sd)) 112.28 (50.94) 110.73 (30.99) 128.38 (47.39) 106.94 (53.06) 133.75 (37.69)
## trig (mean (sd)) 131.82 (33.73) 165.00 (64.58) 129.76 (58.95) 110.21 (48.98) 127.73 (72.11)
## platelet (mean (sd)) 213.44 (72.17) 289.00 (65.18) 235.71 (93.92) 264.78 (88.83) 312.41 (107.56)
## protime (mean (sd)) 10.94 (0.80) 10.73 (0.51) 10.97 (1.07) 10.42 (0.92) 10.31 (0.53)
## Stratified by status:sex
## 2:f p test
## n 137
## time (mean (sd)) 1340.50 (1036.28) <0.001
## age (mean (sd)) 53.31 (9.63) <0.001
## bili (mean (sd)) 5.97 (6.16) <0.001
## chol (mean (sd)) 430.14 (294.85) 0.016
## albumin (mean (sd)) 3.33 (0.46) <0.001
## copper (mean (sd)) 130.39 (101.92) <0.001
## alk.phos (mean (sd)) 2680.93 (2762.92) 0.001
## ast (mean (sd)) 144.82 (60.27) <0.001
## trig (mean (sd)) 142.93 (83.28) 0.007
## platelet (mean (sd)) 243.73 (110.52) 0.009
## protime (mean (sd)) 11.23 (1.04) <0.001
## Five digits
print(contTable, digits = 5)
## Stratified by status:sex
## 0:m 1:m 2:m
## n 17 3 24
## time (mean (sd)) 2462.17647 (1217.32721) 1147.66667 (785.77690) 1584.87500 (1120.46063)
## age (mean (sd)) 55.68595 (10.64563) 42.16290 (11.97184) 57.42174 (10.34449)
## bili (mean (sd)) 2.62941 (2.61576) 2.36667 (1.15036) 3.09583 (2.24818)
## chol (mean (sd)) 367.90909 (234.98572) 415.33333 (201.32147) 352.04762 (149.17757)
## albumin (mean (sd)) 3.47176 (0.42631) 3.74667 (0.28431) 3.55333 (0.49715)
## copper (mean (sd)) 128.81818 (113.07238) 215.33333 (198.03367) 158.68182 (78.57201)
## alk.phos (mean (sd)) 2482.25455 (3052.93587) 921.00000 (196.49682) 2189.01818 (2243.18335)
## ast (mean (sd)) 112.27727 (50.94183) 110.73333 (30.98731) 128.38227 (47.39408)
## trig (mean (sd)) 131.81818 (33.72779) 165.00000 (64.58328) 129.76190 (58.95499)
## platelet (mean (sd)) 213.43750 (72.17291) 289.00000 (65.18435) 235.70833 (93.91785)
## protime (mean (sd)) 10.94118 (0.79926) 10.73333 (0.51316) 10.96667 (1.07164)
## Stratified by status:sex
## 0:f 1:f 2:f p test
## n 215 22 137
## time (mean (sd)) 2322.95349 (977.60792) 1600.54545 (750.69959) 1340.50365 (1036.27652) <0.001
## age (mean (sd)) 49.02203 (10.27669) 41.62939 (5.67188) 53.30739 (9.62692) <0.001
## bili (mean (sd)) 1.49256 (1.82545) 3.71818 (3.79795) 5.96715 (6.16374) <0.001
## chol (mean (sd)) 323.31206 (159.87321) 444.33333 (361.62128) 430.13978 (294.84674) 0.016
## albumin (mean (sd)) 3.60312 (0.35405) 3.45227 (0.46801) 3.32679 (0.45716) <0.001
## copper (mean (sd)) 62.22436 (48.65528) 106.87500 (69.34443) 130.39216 (101.92321) <0.001
## alk.phos (mean (sd)) 1514.78089 (1481.83371) 1650.37500 (864.54619) 2680.93010 (2762.92155) 0.001
## ast (mean (sd)) 106.93624 (53.06053) 133.75000 (37.69283) 144.82456 (60.27241) <0.001
## trig (mean (sd)) 110.21429 (48.98066) 127.73333 (72.10753) 142.93478 (83.27682) 0.007
## platelet (mean (sd)) 264.77725 (88.83030) 312.40909 (107.56157) 243.73282 (110.52183) 0.009
## protime (mean (sd)) 10.41542 (0.92447) 10.30909 (0.53087) 11.23015 (1.04402) <0.001
## All nonnormal
print(contTable, nonnormal = TRUE)
## Stratified by status:sex
## 0:m 1:m 2:m
## n 17 3 24
## time (median [IQR]) 1899.00 [1419.00, 3445.00] 877.00 [705.00, 1455.00] 1257.00 [867.25, 1906.00]
## age (median [IQR]) 52.89 [49.14, 61.00] 35.35 [35.25, 45.67] 57.59 [51.07, 67.45]
## bili (median [IQR]) 1.70 [0.90, 3.00] 2.40 [1.80, 2.95] 2.30 [1.58, 3.62]
## chol (median [IQR]) 252.00 [242.50, 403.00] 325.00 [300.00, 485.50] 331.00 [247.00, 426.00]
## albumin (median [IQR]) 3.59 [3.15, 3.73] 3.83 [3.63, 3.91] 3.67 [3.33, 3.93]
## copper (median [IQR]) 84.00 [57.00, 168.00] 102.00 [101.00, 273.00] 165.00 [96.75, 215.25]
## alk.phos (median [IQR]) 1098.00 [913.00, 2311.00] 855.00 [810.50, 998.50] 1452.00 [973.75, 2387.00]
## ast (median [IQR]) 108.50 [62.77, 142.55] 127.00 [101.00, 128.60] 124.78 [88.53, 170.50]
## trig (median [IQR]) 128.00 [112.50, 153.50] 194.00 [142.50, 202.00] 122.00 [91.00, 155.00]
## platelet (median [IQR]) 212.50 [170.50, 267.00] 306.00 [261.50, 325.00] 225.50 [154.75, 328.00]
## protime (median [IQR]) 10.90 [10.60, 11.20] 10.60 [10.45, 10.95] 10.95 [10.17, 11.33]
## Stratified by status:sex
## 0:f 1:f 2:f p
## n 215 22 137
## time (median [IQR]) 2195.00 [1469.00, 2917.50] 1441.00 [1033.25, 2260.50] 1037.00 [549.00, 2071.00] <0.001
## age (median [IQR]) 49.00 [40.90, 56.60] 41.08 [37.28, 46.98] 53.00 [46.39, 60.71] <0.001
## bili (median [IQR]) 0.90 [0.60, 1.45] 3.15 [1.38, 4.18] 3.40 [1.40, 7.30] <0.001
## chol (median [IQR]) 294.00 [246.00, 360.00] 348.00 [313.00, 441.00] 344.00 [260.00, 468.00] 0.040
## albumin (median [IQR]) 3.60 [3.37, 3.83] 3.52 [3.13, 3.76] 3.36 [3.08, 3.60] <0.001
## copper (median [IQR]) 51.50 [33.00, 75.25] 98.00 [58.50, 126.25] 102.50 [58.00, 172.75] <0.001
## alk.phos (median [IQR]) 1110.00 [794.00, 1637.00] 1407.00 [1131.75, 1932.00] 1787.00 [1057.00, 2562.00] <0.001
## ast (median [IQR]) 93.00 [72.85, 128.65] 124.00 [114.31, 153.45] 136.74 [102.88, 177.48] <0.001
## trig (median [IQR]) 101.00 [76.75, 133.00] 118.00 [81.00, 142.00] 121.00 [91.75, 171.25] 0.008
## platelet (median [IQR]) 256.00 [209.00, 317.50] 301.00 [252.00, 384.00] 224.00 [160.00, 304.00] 0.002
## protime (median [IQR]) 10.30 [9.90, 10.70] 10.10 [10.00, 10.65] 11.05 [10.60, 11.80] <0.001
## Stratified by status:sex
## test
## n
## time (median [IQR]) nonnorm
## age (median [IQR]) nonnorm
## bili (median [IQR]) nonnorm
## chol (median [IQR]) nonnorm
## albumin (median [IQR]) nonnorm
## copper (median [IQR]) nonnorm
## alk.phos (median [IQR]) nonnorm
## ast (median [IQR]) nonnorm
## trig (median [IQR]) nonnorm
## platelet (median [IQR]) nonnorm
## protime (median [IQR]) nonnorm
## quote
print(contTable, quote = TRUE)
## "Stratified by status:sex"
## "" "0:m" "1:m" "2:m" "0:f"
## "n" "17" "3" "24" "215"
## "time (mean (sd))" "2462.18 (1217.33)" "1147.67 (785.78)" "1584.88 (1120.46)" "2322.95 (977.61)"
## "age (mean (sd))" " 55.69 (10.65)" " 42.16 (11.97)" " 57.42 (10.34)" " 49.02 (10.28)"
## "bili (mean (sd))" " 2.63 (2.62)" " 2.37 (1.15)" " 3.10 (2.25)" " 1.49 (1.83)"
## "chol (mean (sd))" " 367.91 (234.99)" " 415.33 (201.32)" " 352.05 (149.18)" " 323.31 (159.87)"
## "albumin (mean (sd))" " 3.47 (0.43)" " 3.75 (0.28)" " 3.55 (0.50)" " 3.60 (0.35)"
## "copper (mean (sd))" " 128.82 (113.07)" " 215.33 (198.03)" " 158.68 (78.57)" " 62.22 (48.66)"
## "alk.phos (mean (sd))" "2482.25 (3052.94)" " 921.00 (196.50)" "2189.02 (2243.18)" "1514.78 (1481.83)"
## "ast (mean (sd))" " 112.28 (50.94)" " 110.73 (30.99)" " 128.38 (47.39)" " 106.94 (53.06)"
## "trig (mean (sd))" " 131.82 (33.73)" " 165.00 (64.58)" " 129.76 (58.95)" " 110.21 (48.98)"
## "platelet (mean (sd))" " 213.44 (72.17)" " 289.00 (65.18)" " 235.71 (93.92)" " 264.78 (88.83)"
## "protime (mean (sd))" " 10.94 (0.80)" " 10.73 (0.51)" " 10.97 (1.07)" " 10.42 (0.92)"
## "Stratified by status:sex"
## "" "1:f" "2:f" "p" "test"
## "n" "22" "137" "" ""
## "time (mean (sd))" "1600.55 (750.70)" "1340.50 (1036.28)" "<0.001" ""
## "age (mean (sd))" " 41.63 (5.67)" " 53.31 (9.63)" "<0.001" ""
## "bili (mean (sd))" " 3.72 (3.80)" " 5.97 (6.16)" "<0.001" ""
## "chol (mean (sd))" " 444.33 (361.62)" " 430.14 (294.85)" " 0.016" ""
## "albumin (mean (sd))" " 3.45 (0.47)" " 3.33 (0.46)" "<0.001" ""
## "copper (mean (sd))" " 106.88 (69.34)" " 130.39 (101.92)" "<0.001" ""
## "alk.phos (mean (sd))" "1650.38 (864.55)" "2680.93 (2762.92)" " 0.001" ""
## "ast (mean (sd))" " 133.75 (37.69)" " 144.82 (60.27)" "<0.001" ""
## "trig (mean (sd))" " 127.73 (72.11)" " 142.93 (83.28)" " 0.007" ""
## "platelet (mean (sd))" " 312.41 (107.56)" " 243.73 (110.52)" " 0.009" ""
## "protime (mean (sd))" " 10.31 (0.53)" " 11.23 (1.04)" "<0.001" ""
## Partially nonnormal
print(contTable, nonnormal = nonNormalVars)
## Stratified by status:sex
## 0:m 1:m 2:m
## n 17 3 24
## time (mean (sd)) 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46)
## age (mean (sd)) 55.69 (10.65) 42.16 (11.97) 57.42 (10.34)
## bili (median [IQR]) 1.70 [0.90, 3.00] 2.40 [1.80, 2.95] 2.30 [1.58, 3.62]
## chol (median [IQR]) 252.00 [242.50, 403.00] 325.00 [300.00, 485.50] 331.00 [247.00, 426.00]
## albumin (mean (sd)) 3.47 (0.43) 3.75 (0.28) 3.55 (0.50)
## copper (median [IQR]) 84.00 [57.00, 168.00] 102.00 [101.00, 273.00] 165.00 [96.75, 215.25]
## alk.phos (median [IQR]) 1098.00 [913.00, 2311.00] 855.00 [810.50, 998.50] 1452.00 [973.75, 2387.00]
## ast (mean (sd)) 112.28 (50.94) 110.73 (30.99) 128.38 (47.39)
## trig (median [IQR]) 128.00 [112.50, 153.50] 194.00 [142.50, 202.00] 122.00 [91.00, 155.00]
## platelet (mean (sd)) 213.44 (72.17) 289.00 (65.18) 235.71 (93.92)
## protime (median [IQR]) 10.90 [10.60, 11.20] 10.60 [10.45, 10.95] 10.95 [10.17, 11.33]
## Stratified by status:sex
## 0:f 1:f 2:f p
## n 215 22 137
## time (mean (sd)) 2322.95 (977.61) 1600.55 (750.70) 1340.50 (1036.28) <0.001
## age (mean (sd)) 49.02 (10.28) 41.63 (5.67) 53.31 (9.63) <0.001
## bili (median [IQR]) 0.90 [0.60, 1.45] 3.15 [1.38, 4.18] 3.40 [1.40, 7.30] <0.001
## chol (median [IQR]) 294.00 [246.00, 360.00] 348.00 [313.00, 441.00] 344.00 [260.00, 468.00] 0.040
## albumin (mean (sd)) 3.60 (0.35) 3.45 (0.47) 3.33 (0.46) <0.001
## copper (median [IQR]) 51.50 [33.00, 75.25] 98.00 [58.50, 126.25] 102.50 [58.00, 172.75] <0.001
## alk.phos (median [IQR]) 1110.00 [794.00, 1637.00] 1407.00 [1131.75, 1932.00] 1787.00 [1057.00, 2562.00] <0.001
## ast (mean (sd)) 106.94 (53.06) 133.75 (37.69) 144.82 (60.27) <0.001
## trig (median [IQR]) 101.00 [76.75, 133.00] 118.00 [81.00, 142.00] 121.00 [91.75, 171.25] 0.008
## platelet (mean (sd)) 264.78 (88.83) 312.41 (107.56) 243.73 (110.52) 0.009
## protime (median [IQR]) 10.30 [9.90, 10.70] 10.10 [10.00, 10.65] 11.05 [10.60, 11.80] <0.001
## Stratified by status:sex
## test
## n
## time (mean (sd))
## age (mean (sd))
## bili (median [IQR]) nonnorm
## chol (median [IQR]) nonnorm
## albumin (mean (sd))
## copper (median [IQR]) nonnorm
## alk.phos (median [IQR]) nonnorm
## ast (mean (sd))
## trig (median [IQR]) nonnorm
## platelet (mean (sd))
## protime (median [IQR]) nonnorm
## Partially nonnormal median [range]
print(contTable, nonnormal = nonNormalVars, minMax = TRUE)
## Stratified by status:sex
## 0:m 1:m 2:m
## n 17 3 24
## time (mean (sd)) 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46)
## age (mean (sd)) 55.69 (10.65) 42.16 (11.97) 57.42 (10.34)
## bili (median [range]) 1.70 [0.60, 8.60] 2.40 [1.20, 3.50] 2.30 [0.80, 9.50]
## chol (median [range]) 252.00 [216.00, 1000.00] 325.00 [275.00, 646.00] 331.00 [151.00, 660.00]
## albumin (mean (sd)) 3.47 (0.43) 3.75 (0.28) 3.55 (0.50)
## copper (median [range]) 84.00 [25.00, 380.00] 102.00 [100.00, 444.00] 165.00 [13.00, 290.00]
## alk.phos (median [range]) 1098.00 [601.00, 10396.80] 855.00 [766.00, 1142.00] 1452.00 [516.00, 10165.00]
## ast (mean (sd)) 112.28 (50.94) 110.73 (30.99) 128.38 (47.39)
## trig (median [range]) 128.00 [83.00, 188.00] 194.00 [91.00, 210.00] 122.00 [49.00, 242.00]
## platelet (mean (sd)) 213.44 (72.17) 289.00 (65.18) 235.71 (93.92)
## protime (median [range]) 10.90 [9.80, 13.00] 10.60 [10.30, 11.30] 10.95 [9.70, 14.10]
## Stratified by status:sex
## 0:f 1:f 2:f p
## n 215 22 137
## time (mean (sd)) 2322.95 (977.61) 1600.55 (750.70) 1340.50 (1036.28) <0.001
## age (mean (sd)) 49.02 (10.28) 41.63 (5.67) 53.31 (9.63) <0.001
## bili (median [range]) 0.90 [0.30, 13.60] 3.15 [0.50, 18.00] 3.40 [0.30, 28.00] <0.001
## chol (median [range]) 294.00 [120.00, 1480.00] 348.00 [201.00, 1712.00] 344.00 [127.00, 1775.00] 0.040
## albumin (mean (sd)) 3.60 (0.35) 3.45 (0.47) 3.33 (0.46) <0.001
## copper (median [range]) 51.50 [4.00, 412.00] 98.00 [32.00, 308.00] 102.50 [14.00, 588.00] <0.001
## alk.phos (median [range]) 1110.00 [289.00, 11046.60] 1407.00 [637.00, 3681.00] 1787.00 [559.00, 13862.40] <0.001
## ast (mean (sd)) 106.94 (53.06) 133.75 (37.69) 144.82 (60.27) <0.001
## trig (median [range]) 101.00 [44.00, 382.00] 118.00 [33.00, 322.00] 121.00 [50.00, 598.00] 0.008
## platelet (mean (sd)) 264.78 (88.83) 312.41 (107.56) 243.73 (110.52) 0.009
## protime (median [range]) 10.30 [9.00, 18.00] 10.10 [9.60, 11.40] 11.05 [9.00, 15.20] <0.001
## Stratified by status:sex
## test
## n
## time (mean (sd))
## age (mean (sd))
## bili (median [range]) nonnorm
## chol (median [range]) nonnorm
## albumin (mean (sd))
## copper (median [range]) nonnorm
## alk.phos (median [range]) nonnorm
## ast (mean (sd))
## trig (median [range]) nonnorm
## platelet (mean (sd))
## protime (median [range]) nonnorm
## test
print(contTable, test = FALSE)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f
## n 17 3 24 215 22
## time (mean (sd)) 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46) 2322.95 (977.61) 1600.55 (750.70)
## age (mean (sd)) 55.69 (10.65) 42.16 (11.97) 57.42 (10.34) 49.02 (10.28) 41.63 (5.67)
## bili (mean (sd)) 2.63 (2.62) 2.37 (1.15) 3.10 (2.25) 1.49 (1.83) 3.72 (3.80)
## chol (mean (sd)) 367.91 (234.99) 415.33 (201.32) 352.05 (149.18) 323.31 (159.87) 444.33 (361.62)
## albumin (mean (sd)) 3.47 (0.43) 3.75 (0.28) 3.55 (0.50) 3.60 (0.35) 3.45 (0.47)
## copper (mean (sd)) 128.82 (113.07) 215.33 (198.03) 158.68 (78.57) 62.22 (48.66) 106.88 (69.34)
## alk.phos (mean (sd)) 2482.25 (3052.94) 921.00 (196.50) 2189.02 (2243.18) 1514.78 (1481.83) 1650.38 (864.55)
## ast (mean (sd)) 112.28 (50.94) 110.73 (30.99) 128.38 (47.39) 106.94 (53.06) 133.75 (37.69)
## trig (mean (sd)) 131.82 (33.73) 165.00 (64.58) 129.76 (58.95) 110.21 (48.98) 127.73 (72.11)
## platelet (mean (sd)) 213.44 (72.17) 289.00 (65.18) 235.71 (93.92) 264.78 (88.83) 312.41 (107.56)
## protime (mean (sd)) 10.94 (0.80) 10.73 (0.51) 10.97 (1.07) 10.42 (0.92) 10.31 (0.53)
## Stratified by status:sex
## 2:f
## n 137
## time (mean (sd)) 1340.50 (1036.28)
## age (mean (sd)) 53.31 (9.63)
## bili (mean (sd)) 5.97 (6.16)
## chol (mean (sd)) 430.14 (294.85)
## albumin (mean (sd)) 3.33 (0.46)
## copper (mean (sd)) 130.39 (101.92)
## alk.phos (mean (sd)) 2680.93 (2762.92)
## ast (mean (sd)) 144.82 (60.27)
## trig (mean (sd)) 142.93 (83.28)
## platelet (mean (sd)) 243.73 (110.52)
## protime (mean (sd)) 11.23 (1.04)
## pDigits
print(contTable, pDigits = 5)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f
## n 17 3 24 215 22
## time (mean (sd)) 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46) 2322.95 (977.61) 1600.55 (750.70)
## age (mean (sd)) 55.69 (10.65) 42.16 (11.97) 57.42 (10.34) 49.02 (10.28) 41.63 (5.67)
## bili (mean (sd)) 2.63 (2.62) 2.37 (1.15) 3.10 (2.25) 1.49 (1.83) 3.72 (3.80)
## chol (mean (sd)) 367.91 (234.99) 415.33 (201.32) 352.05 (149.18) 323.31 (159.87) 444.33 (361.62)
## albumin (mean (sd)) 3.47 (0.43) 3.75 (0.28) 3.55 (0.50) 3.60 (0.35) 3.45 (0.47)
## copper (mean (sd)) 128.82 (113.07) 215.33 (198.03) 158.68 (78.57) 62.22 (48.66) 106.88 (69.34)
## alk.phos (mean (sd)) 2482.25 (3052.94) 921.00 (196.50) 2189.02 (2243.18) 1514.78 (1481.83) 1650.38 (864.55)
## ast (mean (sd)) 112.28 (50.94) 110.73 (30.99) 128.38 (47.39) 106.94 (53.06) 133.75 (37.69)
## trig (mean (sd)) 131.82 (33.73) 165.00 (64.58) 129.76 (58.95) 110.21 (48.98) 127.73 (72.11)
## platelet (mean (sd)) 213.44 (72.17) 289.00 (65.18) 235.71 (93.92) 264.78 (88.83) 312.41 (107.56)
## protime (mean (sd)) 10.94 (0.80) 10.73 (0.51) 10.97 (1.07) 10.42 (0.92) 10.31 (0.53)
## Stratified by status:sex
## 2:f p test
## n 137
## time (mean (sd)) 1340.50 (1036.28) <0.00001
## age (mean (sd)) 53.31 (9.63) <0.00001
## bili (mean (sd)) 5.97 (6.16) <0.00001
## chol (mean (sd)) 430.14 (294.85) 0.01615
## albumin (mean (sd)) 3.33 (0.46) <0.00001
## copper (mean (sd)) 130.39 (101.92) <0.00001
## alk.phos (mean (sd)) 2680.93 (2762.92) 0.00086
## ast (mean (sd)) 144.82 (60.27) 0.00001
## trig (mean (sd)) 142.93 (83.28) 0.00739
## platelet (mean (sd)) 243.73 (110.52) 0.00866
## protime (mean (sd)) 11.23 (1.04) <0.00001
## No explanation
print(contTable, explain = FALSE)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f
## n 17 3 24 215 22
## time 2462.18 (1217.33) 1147.67 (785.78) 1584.88 (1120.46) 2322.95 (977.61) 1600.55 (750.70)
## age 55.69 (10.65) 42.16 (11.97) 57.42 (10.34) 49.02 (10.28) 41.63 (5.67)
## bili 2.63 (2.62) 2.37 (1.15) 3.10 (2.25) 1.49 (1.83) 3.72 (3.80)
## chol 367.91 (234.99) 415.33 (201.32) 352.05 (149.18) 323.31 (159.87) 444.33 (361.62)
## albumin 3.47 (0.43) 3.75 (0.28) 3.55 (0.50) 3.60 (0.35) 3.45 (0.47)
## copper 128.82 (113.07) 215.33 (198.03) 158.68 (78.57) 62.22 (48.66) 106.88 (69.34)
## alk.phos 2482.25 (3052.94) 921.00 (196.50) 2189.02 (2243.18) 1514.78 (1481.83) 1650.38 (864.55)
## ast 112.28 (50.94) 110.73 (30.99) 128.38 (47.39) 106.94 (53.06) 133.75 (37.69)
## trig 131.82 (33.73) 165.00 (64.58) 129.76 (58.95) 110.21 (48.98) 127.73 (72.11)
## platelet 213.44 (72.17) 289.00 (65.18) 235.71 (93.92) 264.78 (88.83) 312.41 (107.56)
## protime 10.94 (0.80) 10.73 (0.51) 10.97 (1.07) 10.42 (0.92) 10.31 (0.53)
## Stratified by status:sex
## 2:f p test
## n 137
## time 1340.50 (1036.28) <0.001
## age 53.31 (9.63) <0.001
## bili 5.97 (6.16) <0.001
## chol 430.14 (294.85) 0.016
## albumin 3.33 (0.46) <0.001
## copper 130.39 (101.92) <0.001
## alk.phos 2680.93 (2762.92) 0.001
## ast 144.82 (60.27) <0.001
## trig 142.93 (83.28) 0.007
## platelet 243.73 (110.52) 0.009
## protime 11.23 (1.04) <0.001
### Behaviors on correct data format (stratified, 3-variables (1 empty level))
## Three variables
contTable <- CreateContTable(vars = vars, strata = strataThreeVars, data = dataFrame)
## print method
contTable
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1
## n 15 132 0 5 18
## time (mean (sd)) 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64) 1702.78 (1198.55)
## age (mean (sd)) 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52) 58.60 (9.18)
## bili (mean (sd)) 2.24 (1.31) 1.61 (2.40) - 7.14 (7.65) 3.37 (2.61)
## chol (mean (sd)) 360.33 (164.98) 336.99 (158.86) - 253.00 (86.81) 382.61 (194.31)
## albumin (mean (sd)) 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54) 3.59 (0.34)
## copper (mean (sd)) 166.27 (107.94) 65.56 (56.66) - 112.40 (72.72) 142.44 (82.94)
## alk.phos (mean (sd)) 2839.41 (3424.63) 1634.45 (1732.65) - 1257.60 (416.42) 1822.89 (1260.72)
## ast (mean (sd)) 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75) 124.49 (49.03)
## trig (mean (sd)) 132.20 (55.55) 110.70 (52.29) - 138.50 (67.34) 138.00 (49.34)
## platelet (mean (sd)) 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54) 240.94 (86.30)
## protime (mean (sd)) 11.07 (1.19) 10.42 (0.89) - 12.02 (1.16) 10.82 (0.63)
## Stratified by sex:ascites:hepato
## f:0:1 m:1:1 f:1:1 p test
## n 123 3 16
## time (mean (sd)) 1838.28 (1007.36) 1057.67 (799.01) 668.25 (805.64) <0.001
## age (mean (sd)) 48.71 (9.71) 67.52 (11.11) 54.92 (8.91) <0.001
## bili (mean (sd)) 3.97 (4.84) 3.07 (3.50) 10.97 (7.80) <0.001
## chol (mean (sd)) 411.14 (298.67) 197.00 (65.05) 364.50 (247.72) 0.210
## albumin (mean (sd)) 3.43 (0.39) 2.79 (0.45) 3.02 (0.45) <0.001
## copper (mean (sd)) 104.11 (85.01) 165.33 (186.51) 184.13 (125.71) <0.001
## alk.phos (mean (sd)) 2259.90 (2445.16) 941.00 (195.41) 2522.41 (2043.39) 0.109
## ast (mean (sd)) 130.47 (60.16) 91.87 (58.65) 140.36 (43.22) 0.032
## trig (mean (sd)) 127.48 (60.14) 101.50 (74.25) 193.71 (145.19) 0.001
## platelet (mean (sd)) 253.06 (97.99) 155.33 (58.00) 197.38 (94.71) <0.001
## protime (mean (sd)) 10.79 (0.96) 11.80 (1.22) 11.79 (1.09) <0.001
## summary method
summary(contTable)
## sex: m
## ascites: 0
## hepato: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 15 0 2412.3 1422.19 2386.0 1186.0 3607.5 140.0 4459.0 0.12 -1.29
## age 15 0 51.1 12.11 49.1 44.2 60.8 33.5 70.1 0.19 -1.02
## bili 15 0 2.2 1.31 1.9 1.6 2.5 0.6 6.0 1.71 4.35
## chol 15 0 360.3 164.98 317.0 250.5 438.0 168.0 660.0 0.87 -0.46
## albumin 15 0 3.7 0.44 3.8 3.5 4.0 2.6 4.3 -1.27 2.40
## copper 15 0 166.3 107.94 158.0 98.0 213.5 13.0 444.0 1.02 2.05
## alk.phos 15 0 2839.4 3424.63 1056.0 740.0 3470.7 516.0 10396.8 1.61 1.36
## ast 15 0 125.0 43.62 127.0 102.3 141.1 56.8 206.4 0.26 -0.32
## trig 15 0 132.2 55.55 118.0 85.5 183.0 55.0 219.0 0.19 -1.42
## platelet 15 1 246.6 88.70 213.5 180.8 329.2 108.0 394.0 0.25 -1.17
## protime 15 0 11.1 1.19 10.6 10.2 11.3 9.7 14.1 1.47 1.96
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 132 0 2375.2 1020.62 2361.0 1475.0 3089.0 198.0 4556.0 0.168 -0.73
## age 132 0 48.4 10.22 48.0 40.7 56.1 28.9 75.0 0.271 -0.55
## bili 132 0 1.6 2.40 0.9 0.6 1.4 0.3 22.5 5.827 45.14
## chol 132 15 337.0 158.86 296.0 242.0 390.0 120.0 1276.0 2.853 12.23
## albumin 132 0 3.7 0.34 3.7 3.4 3.9 2.8 4.6 0.075 0.20
## copper 132 1 65.6 56.66 52.0 32.0 78.5 4.0 464.0 3.395 18.96
## alk.phos 132 0 1634.5 1732.65 1177.5 793.2 1689.8 369.0 12258.8 3.998 18.79
## ast 132 0 111.4 52.10 99.1 73.4 136.2 28.4 328.6 1.278 2.10
## trig 132 15 110.7 52.29 100.0 74.0 135.0 44.0 382.0 1.875 5.96
## platelet 132 0 287.4 87.74 278.0 226.5 336.5 71.0 514.0 0.267 -0.17
## protime 132 0 10.4 0.89 10.3 9.9 10.7 9.0 17.1 3.791 24.98
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 0
## NULL
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 5 0 1130.2 1382.64 388.0 51.0 2081.0 41.0 3090.0 0.86 -1.63
## age 5 0 64.6 10.52 65.9 60.7 70.6 49.0 76.7 -0.66 0.39
## bili 5 0 7.1 7.65 2.5 1.4 12.6 1.3 17.9 0.86 -1.80
## chol 5 0 253.0 86.81 206.0 200.0 302.0 175.0 382.0 0.98 -0.68
## albumin 5 0 2.9 0.54 2.8 2.7 3.1 2.1 3.5 -0.20 0.49
## copper 5 0 112.4 72.72 108.0 58.0 140.0 36.0 220.0 0.71 -0.07
## alk.phos 5 0 1257.6 416.42 1516.0 918.0 1523.0 705.0 1626.0 -0.70 -2.41
## ast 5 0 170.8 118.75 147.2 86.8 238.7 43.4 338.0 0.57 -0.98
## trig 5 1 138.5 67.34 127.5 101.5 164.5 70.0 229.0 0.88 1.02
## platelet 5 0 192.8 116.54 145.0 126.0 302.0 62.0 329.0 0.31 -2.55
## protime 5 0 12.0 1.16 12.2 11.5 12.9 10.3 13.2 -0.76 -0.29
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 0
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 18 0 1702.8 1198.55 1299.5 821.8 2088.5 533.0 4191.0 1.14 0.053
## age 18 0 58.6 9.18 58.3 51.3 66.6 44.5 74.5 0.22 -1.195
## bili 18 0 3.4 2.61 2.3 1.2 5.2 0.6 8.6 0.78 -0.760
## chol 18 0 382.6 194.31 361.0 251.2 426.8 178.0 1000.0 1.98 5.357
## albumin 18 0 3.6 0.34 3.7 3.4 3.9 3.0 4.0 -0.61 -0.901
## copper 18 0 142.4 82.94 114.5 81.8 197.0 25.0 290.0 0.48 -1.049
## alk.phos 18 0 1822.9 1260.72 1222.5 1028.8 2387.0 681.0 5719.0 1.92 4.468
## ast 18 0 124.5 49.03 118.6 84.3 168.9 57.4 221.9 0.48 -0.872
## trig 18 0 138.0 49.34 127.0 95.0 153.8 83.0 242.0 1.00 0.086
## platelet 18 0 240.9 86.30 250.0 189.5 298.8 70.0 360.0 -0.47 -0.738
## protime 18 0 10.8 0.63 10.9 10.4 11.3 9.8 12.0 -0.25 -0.676
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 123 0 1838.3 1007.36 1741.0 1083.5 2391.0 71.0 4523.0 0.71 0.24
## age 123 0 48.7 9.71 49.3 41.4 55.6 26.3 69.3 -0.06 -0.69
## bili 123 0 4.0 4.84 2.1 1.0 5.0 0.4 28.0 2.64 8.22
## chol 123 10 411.1 298.67 322.0 260.0 408.0 149.0 1775.0 3.09 9.84
## albumin 123 0 3.4 0.39 3.5 3.2 3.6 2.0 4.2 -0.62 1.57
## copper 123 0 104.1 85.01 76.0 50.0 125.5 11.0 588.0 2.47 9.18
## alk.phos 123 0 2259.9 2445.16 1428.0 958.0 2280.0 289.0 13862.4 2.68 7.38
## ast 123 0 130.5 60.16 120.9 90.5 158.9 26.4 457.2 1.76 6.54
## trig 123 11 127.5 60.14 108.5 89.5 149.8 33.0 322.0 1.40 2.04
## platelet 123 3 253.1 97.99 239.0 184.5 306.0 79.0 563.0 0.71 0.72
## protime 123 0 10.8 0.96 10.6 10.0 11.5 9.2 13.3 0.65 -0.34
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 3 0 1057.7 799.01 1217.0 704.0 1491.0 191.0 1765.0 -0.862 NaN
## age 3 0 67.5 11.11 67.9 62.1 73.2 56.2 78.4 -0.155 NaN
## bili 3 0 3.1 3.50 1.3 1.1 4.2 0.8 7.1 1.692 NaN
## chol 3 1 197.0 65.05 197.0 174.0 220.0 151.0 243.0 NaN NaN
## albumin 3 0 2.8 0.45 3.0 2.6 3.1 2.3 3.1 -1.708 NaN
## copper 3 0 165.3 186.51 73.0 58.0 226.5 43.0 380.0 1.682 NaN
## alk.phos 3 0 941.0 195.41 983.0 855.5 1047.5 728.0 1112.0 -0.922 NaN
## ast 3 0 91.9 58.65 71.0 58.8 114.5 46.5 158.1 1.398 NaN
## trig 3 1 101.5 74.25 101.5 75.2 127.8 49.0 154.0 NaN NaN
## platelet 3 0 155.3 58.00 156.0 126.5 184.5 97.0 213.0 -0.052 NaN
## protime 3 0 11.8 1.22 11.2 11.1 12.2 11.0 13.2 1.680 NaN
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 16 0 668 805.64 341 206.8 915.8 77.0 3222.0 2.390 6.58
## age 16 0 55 8.91 55 48.3 61.4 39.2 70.9 0.048 -0.53
## bili 16 0 11 7.80 11 4.0 17.2 1.2 24.5 0.178 -1.43
## chol 16 2 364 247.72 278 222.0 382.2 175.0 1092.0 2.299 5.70
## albumin 16 0 3 0.45 3 2.6 3.3 2.3 3.9 0.261 -0.61
## copper 16 1 184 125.71 182 130.5 215.0 16.0 558.0 1.797 5.47
## alk.phos 16 0 2522 2043.39 1776 1070.2 3708.1 559.0 6931.2 1.158 0.10
## ast 16 0 140 43.22 136 105.5 176.5 73.5 227.0 0.288 -0.65
## trig 16 2 194 145.19 162 118.0 188.0 68.0 598.0 2.184 4.55
## platelet 16 0 197 94.71 178 138.5 224.0 80.0 401.0 1.194 0.97
## protime 16 0 12 1.09 12 11.1 12.0 10.6 15.2 2.201 6.15
##
## p-values
## pNormal pNonNormal
## time 2.212e-09 3.079e-09
## age 4.535e-07 2.860e-05
## bili 3.761e-15 1.059e-13
## chol 2.101e-01 7.850e-02
## albumin 5.323e-15 8.993e-11
## copper 4.615e-10 4.233e-10
## alk.phos 1.087e-01 7.650e-02
## ast 3.181e-02 2.190e-02
## trig 6.931e-04 8.213e-03
## platelet 2.232e-04 1.645e-04
## protime 1.554e-08 2.096e-08
## Five digits
summary(contTable, digits = 5)
## sex: m
## ascites: 0
## hepato: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 15 0 2412.3333 1422.1935 2386.000 1186.000 3607.500 140.000 4459.000 0.11514 -1.28856
## age 15 0 51.0658 12.1127 49.136 44.234 60.798 33.476 70.073 0.18822 -1.02481
## bili 15 0 2.2400 1.3092 1.900 1.550 2.450 0.600 6.000 1.70918 4.35377
## chol 15 0 360.3333 164.9847 317.000 250.500 438.000 168.000 660.000 0.86891 -0.45501
## albumin 15 0 3.7227 0.4384 3.830 3.470 3.965 2.560 4.300 -1.26772 2.40204
## copper 15 0 166.2667 107.9421 158.000 98.000 213.500 13.000 444.000 1.02399 2.05082
## alk.phos 15 0 2839.4133 3424.6273 1056.000 740.000 3470.700 516.000 10396.800 1.61265 1.35674
## ast 15 0 125.0153 43.6168 127.000 102.300 141.050 56.760 206.400 0.26480 -0.32296
## trig 15 0 132.2000 55.5482 118.000 85.500 183.000 55.000 219.000 0.19362 -1.41698
## platelet 15 1 246.5714 88.7041 213.500 180.750 329.250 108.000 394.000 0.25147 -1.16574
## protime 15 0 11.0667 1.1938 10.600 10.250 11.350 9.700 14.100 1.47431 1.95643
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 132 0 2375.1894 1020.61775 2361.000 1475.000 3089.000 198.000 4556.000 0.167853 -0.72608
## age 132 0 48.4083 10.22279 47.981 40.676 56.098 28.884 75.012 0.271431 -0.54517
## bili 132 0 1.6121 2.39898 0.900 0.600 1.425 0.300 22.500 5.826786 45.13848
## chol 132 15 336.9915 158.86242 296.000 242.000 390.000 120.000 1276.000 2.852877 12.22718
## albumin 132 0 3.6704 0.33816 3.660 3.440 3.875 2.750 4.640 0.074731 0.20094
## copper 132 1 65.5573 56.66177 52.000 32.000 78.500 4.000 464.000 3.395070 18.96074
## alk.phos 132 0 1634.4515 1732.64762 1177.500 793.250 1689.750 369.000 12258.800 3.998408 18.78644
## ast 132 0 111.3505 52.09675 99.100 73.360 136.250 28.380 328.600 1.277914 2.09790
## trig 132 15 110.7009 52.29018 100.000 74.000 135.000 44.000 382.000 1.874578 5.96483
## platelet 132 0 287.3636 87.73723 278.000 226.500 336.500 71.000 514.000 0.266767 -0.16977
## protime 132 0 10.4159 0.88627 10.300 9.900 10.700 9.000 17.100 3.790505 24.98418
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 0
## NULL
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 0
## n miss mean sd median p25 p75 min max skew kurt
## time 5 0 1130.200 1382.63578 388.000 51.000 2081.00 41.000 3090.000 0.85580 -1.625552
## age 5 0 64.567 10.52400 65.884 60.706 70.56 48.977 76.709 -0.65743 0.388535
## bili 5 0 7.140 7.65134 2.500 1.400 12.60 1.300 17.900 0.85610 -1.797767
## chol 5 0 253.000 86.81014 206.000 200.000 302.00 175.000 382.000 0.97898 -0.682133
## albumin 5 0 2.854 0.53687 2.750 2.740 3.13 2.100 3.550 -0.19680 0.485519
## copper 5 0 112.400 72.72414 108.000 58.000 140.00 36.000 220.000 0.71474 -0.069888
## alk.phos 5 0 1257.600 416.41962 1516.000 918.000 1523.00 705.000 1626.000 -0.70377 -2.413395
## ast 5 0 170.830 118.75143 147.250 86.800 238.70 43.400 338.000 0.57441 -0.984893
## trig 5 1 138.500 67.34241 127.500 101.500 164.50 70.000 229.000 0.87597 1.020728
## platelet 5 0 192.800 116.54484 145.000 126.000 302.00 62.000 329.000 0.31155 -2.551503
## protime 5 0 12.020 1.16490 12.200 11.500 12.90 10.300 13.200 -0.76406 -0.285444
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 0
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 18 0 1702.7778 1198.55185 1299.500 821.750 2088.5000 533.00 4191.000 1.14049 0.052903
## age 18 0 58.5952 9.18409 58.261 51.305 66.6057 44.52 74.524 0.21632 -1.194823
## bili 18 0 3.3667 2.60903 2.300 1.250 5.2000 0.60 8.600 0.77784 -0.760092
## chol 18 0 382.6111 194.31180 361.000 251.250 426.7500 178.00 1000.000 1.98438 5.357124
## albumin 18 0 3.5906 0.33574 3.710 3.385 3.8525 3.00 4.000 -0.60837 -0.901375
## copper 18 0 142.4444 82.93741 114.500 81.750 197.0000 25.00 290.000 0.47972 -1.048835
## alk.phos 18 0 1822.8889 1260.71921 1222.500 1028.750 2387.0000 681.00 5719.000 1.92275 4.468294
## ast 18 0 124.4906 49.03280 118.575 84.275 168.9500 57.35 221.880 0.48276 -0.872198
## trig 18 0 138.0000 49.33916 127.000 95.000 153.7500 83.00 242.000 1.00071 0.085859
## platelet 18 0 240.9444 86.30416 250.000 189.500 298.7500 70.00 360.000 -0.47422 -0.738498
## protime 18 0 10.8167 0.62521 10.900 10.350 11.2750 9.80 12.000 -0.24516 -0.675953
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 123 0 1838.2846 1007.36324 1741.000 1083.500 2391.00 71.000 4523.000 0.708350 0.24326
## age 123 0 48.7093 9.71164 49.339 41.380 55.63 26.278 69.347 -0.060499 -0.68836
## bili 123 0 3.9715 4.83689 2.100 1.000 5.00 0.400 28.000 2.637238 8.21899
## chol 123 10 411.1416 298.66715 322.000 260.000 408.00 149.000 1775.000 3.088032 9.84264
## albumin 123 0 3.4339 0.38584 3.480 3.205 3.65 1.960 4.240 -0.624972 1.57126
## copper 123 0 104.1057 85.01165 76.000 50.000 125.50 11.000 588.000 2.471784 9.17827
## alk.phos 123 0 2259.9041 2445.15851 1428.000 958.000 2280.00 289.000 13862.400 2.680596 7.37586
## ast 123 0 130.4689 60.15503 120.900 90.450 158.88 26.350 457.250 1.758908 6.53695
## trig 123 11 127.4821 60.13543 108.500 89.500 149.75 33.000 322.000 1.399209 2.03784
## platelet 123 3 253.0583 97.99025 239.000 184.500 306.00 79.000 563.000 0.713091 0.71525
## protime 123 0 10.7862 0.96235 10.600 10.000 11.50 9.200 13.300 0.648440 -0.33995
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 3 0 1057.6667 799.00521 1217.000 704.000 1491.000 191.000 1765.000 -0.861681 NaN
## age 3 0 67.5227 11.11381 67.907 62.064 73.173 56.222 78.439 -0.155382 NaN
## bili 3 0 3.0667 3.50190 1.300 1.050 4.200 0.800 7.100 1.692412 NaN
## chol 3 1 197.0000 65.05382 197.000 174.000 220.000 151.000 243.000 NaN NaN
## albumin 3 0 2.7933 0.45391 3.030 2.650 3.055 2.270 3.080 -1.708437 NaN
## copper 3 0 165.3333 186.51095 73.000 58.000 226.500 43.000 380.000 1.681773 NaN
## alk.phos 3 0 941.0000 195.41494 983.000 855.500 1047.500 728.000 1112.000 -0.922495 NaN
## ast 3 0 91.8667 58.65325 71.000 58.750 114.550 46.500 158.100 1.398308 NaN
## trig 3 1 101.5000 74.24621 101.500 75.250 127.750 49.000 154.000 NaN NaN
## platelet 3 0 155.3333 58.00287 156.000 126.500 184.500 97.000 213.000 -0.051715 NaN
## protime 3 0 11.8000 1.21655 11.200 11.100 12.200 11.000 13.200 1.679536 NaN
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 1
## n miss mean sd median p25 p75 min max skew kurt
## time 16 0 668.2500 805.63685 341.000 206.750 915.750 77.000 3222.000 2.389812 6.58466
## age 16 0 54.9174 8.90951 54.917 48.320 61.364 39.198 70.908 0.048155 -0.53000
## bili 16 0 10.9688 7.80425 10.600 4.000 17.250 1.200 24.500 0.177903 -1.43003
## chol 16 2 364.5000 247.72216 278.500 222.000 382.250 175.000 1092.000 2.299491 5.69894
## albumin 16 0 3.0162 0.45119 3.030 2.630 3.320 2.330 3.900 0.261500 -0.61381
## copper 16 1 184.1333 125.70650 182.000 130.500 215.000 16.000 558.000 1.797284 5.46664
## alk.phos 16 0 2522.4125 2043.38875 1775.500 1070.250 3708.050 559.000 6931.200 1.158243 0.10099
## ast 16 0 140.3644 43.21937 135.975 105.463 176.513 73.530 227.040 0.288487 -0.64845
## trig 16 2 193.7143 145.18870 161.500 118.000 188.000 68.000 598.000 2.184143 4.54837
## platelet 16 0 197.3750 94.70648 178.000 138.500 224.000 80.000 401.000 1.194066 0.96941
## protime 16 0 11.7875 1.09354 11.600 11.075 12.025 10.600 15.200 2.200526 6.14523
##
## p-values
## pNormal pNonNormal
## time 2.212e-09 3.079e-09
## age 4.535e-07 2.860e-05
## bili 3.761e-15 1.059e-13
## chol 2.101e-01 7.850e-02
## albumin 5.323e-15 8.993e-11
## copper 4.615e-10 4.233e-10
## alk.phos 1.087e-01 7.650e-02
## ast 3.181e-02 2.190e-02
## trig 6.931e-04 8.213e-03
## platelet 2.232e-04 1.645e-04
## protime 1.554e-08 2.096e-08
## print method by default
print(contTable)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1
## n 15 132 0 5 18
## time (mean (sd)) 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64) 1702.78 (1198.55)
## age (mean (sd)) 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52) 58.60 (9.18)
## bili (mean (sd)) 2.24 (1.31) 1.61 (2.40) - 7.14 (7.65) 3.37 (2.61)
## chol (mean (sd)) 360.33 (164.98) 336.99 (158.86) - 253.00 (86.81) 382.61 (194.31)
## albumin (mean (sd)) 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54) 3.59 (0.34)
## copper (mean (sd)) 166.27 (107.94) 65.56 (56.66) - 112.40 (72.72) 142.44 (82.94)
## alk.phos (mean (sd)) 2839.41 (3424.63) 1634.45 (1732.65) - 1257.60 (416.42) 1822.89 (1260.72)
## ast (mean (sd)) 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75) 124.49 (49.03)
## trig (mean (sd)) 132.20 (55.55) 110.70 (52.29) - 138.50 (67.34) 138.00 (49.34)
## platelet (mean (sd)) 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54) 240.94 (86.30)
## protime (mean (sd)) 11.07 (1.19) 10.42 (0.89) - 12.02 (1.16) 10.82 (0.63)
## Stratified by sex:ascites:hepato
## f:0:1 m:1:1 f:1:1 p test
## n 123 3 16
## time (mean (sd)) 1838.28 (1007.36) 1057.67 (799.01) 668.25 (805.64) <0.001
## age (mean (sd)) 48.71 (9.71) 67.52 (11.11) 54.92 (8.91) <0.001
## bili (mean (sd)) 3.97 (4.84) 3.07 (3.50) 10.97 (7.80) <0.001
## chol (mean (sd)) 411.14 (298.67) 197.00 (65.05) 364.50 (247.72) 0.210
## albumin (mean (sd)) 3.43 (0.39) 2.79 (0.45) 3.02 (0.45) <0.001
## copper (mean (sd)) 104.11 (85.01) 165.33 (186.51) 184.13 (125.71) <0.001
## alk.phos (mean (sd)) 2259.90 (2445.16) 941.00 (195.41) 2522.41 (2043.39) 0.109
## ast (mean (sd)) 130.47 (60.16) 91.87 (58.65) 140.36 (43.22) 0.032
## trig (mean (sd)) 127.48 (60.14) 101.50 (74.25) 193.71 (145.19) 0.001
## platelet (mean (sd)) 253.06 (97.99) 155.33 (58.00) 197.38 (94.71) <0.001
## protime (mean (sd)) 10.79 (0.96) 11.80 (1.22) 11.79 (1.09) <0.001
## Five digits
print(contTable, digits = 5)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0
## n 15 132 0 5
## time (mean (sd)) 2412.33333 (1422.19351) 2375.18939 (1020.61775) - 1130.20000 (1382.63578)
## age (mean (sd)) 51.06585 (12.11265) 48.40831 (10.22279) - 64.56728 (10.52400)
## bili (mean (sd)) 2.24000 (1.30920) 1.61212 (2.39898) - 7.14000 (7.65134)
## chol (mean (sd)) 360.33333 (164.98470) 336.99145 (158.86242) - 253.00000 (86.81014)
## albumin (mean (sd)) 3.72267 (0.43840) 3.67038 (0.33816) - 2.85400 (0.53687)
## copper (mean (sd)) 166.26667 (107.94209) 65.55725 (56.66177) - 112.40000 (72.72414)
## alk.phos (mean (sd)) 2839.41333 (3424.62730) 1634.45152 (1732.64762) - 1257.60000 (416.41962)
## ast (mean (sd)) 125.01533 (43.61679) 111.35045 (52.09675) - 170.83000 (118.75143)
## trig (mean (sd)) 132.20000 (55.54818) 110.70085 (52.29018) - 138.50000 (67.34241)
## platelet (mean (sd)) 246.57143 (88.70410) 287.36364 (87.73723) - 192.80000 (116.54484)
## protime (mean (sd)) 11.06667 (1.19383) 10.41591 (0.88627) - 12.02000 (1.16490)
## Stratified by sex:ascites:hepato
## m:0:1 f:0:1 m:1:1
## n 18 123 3
## time (mean (sd)) 1702.77778 (1198.55185) 1838.28455 (1007.36324) 1057.66667 (799.00521)
## age (mean (sd)) 58.59518 (9.18409) 48.70935 (9.71164) 67.52270 (11.11381)
## bili (mean (sd)) 3.36667 (2.60903) 3.97154 (4.83689) 3.06667 (3.50190)
## chol (mean (sd)) 382.61111 (194.31180) 411.14159 (298.66715) 197.00000 (65.05382)
## albumin (mean (sd)) 3.59056 (0.33574) 3.43390 (0.38584) 2.79333 (0.45391)
## copper (mean (sd)) 142.44444 (82.93741) 104.10569 (85.01165) 165.33333 (186.51095)
## alk.phos (mean (sd)) 1822.88889 (1260.71921) 2259.90407 (2445.15851) 941.00000 (195.41494)
## ast (mean (sd)) 124.49056 (49.03280) 130.46894 (60.15503) 91.86667 (58.65325)
## trig (mean (sd)) 138.00000 (49.33916) 127.48214 (60.13543) 101.50000 (74.24621)
## platelet (mean (sd)) 240.94444 (86.30416) 253.05833 (97.99025) 155.33333 (58.00287)
## protime (mean (sd)) 10.81667 (0.62521) 10.78618 (0.96235) 11.80000 (1.21655)
## Stratified by sex:ascites:hepato
## f:1:1 p test
## n 16
## time (mean (sd)) 668.25000 (805.63685) <0.001
## age (mean (sd)) 54.91735 (8.90951) <0.001
## bili (mean (sd)) 10.96875 (7.80425) <0.001
## chol (mean (sd)) 364.50000 (247.72216) 0.210
## albumin (mean (sd)) 3.01625 (0.45119) <0.001
## copper (mean (sd)) 184.13333 (125.70650) <0.001
## alk.phos (mean (sd)) 2522.41250 (2043.38875) 0.109
## ast (mean (sd)) 140.36437 (43.21937) 0.032
## trig (mean (sd)) 193.71429 (145.18870) 0.001
## platelet (mean (sd)) 197.37500 (94.70648) <0.001
## protime (mean (sd)) 11.78750 (1.09354) <0.001
## All nonnormal
print(contTable, nonnormal = TRUE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0
## n 15 132 0 5
## time (median [IQR]) 2386.00 [1186.00, 3607.50] 2361.00 [1475.00, 3089.00] - 388.00 [51.00, 2081.00]
## age (median [IQR]) 49.14 [44.23, 60.80] 47.98 [40.68, 56.10] - 65.88 [60.71, 70.56]
## bili (median [IQR]) 1.90 [1.55, 2.45] 0.90 [0.60, 1.42] - 2.50 [1.40, 12.60]
## chol (median [IQR]) 317.00 [250.50, 438.00] 296.00 [242.00, 390.00] - 206.00 [200.00, 302.00]
## albumin (median [IQR]) 3.83 [3.47, 3.96] 3.66 [3.44, 3.88] - 2.75 [2.74, 3.13]
## copper (median [IQR]) 158.00 [98.00, 213.50] 52.00 [32.00, 78.50] - 108.00 [58.00, 140.00]
## alk.phos (median [IQR]) 1056.00 [740.00, 3470.70] 1177.50 [793.25, 1689.75] - 1516.00 [918.00, 1523.00]
## ast (median [IQR]) 127.00 [102.30, 141.05] 99.10 [73.36, 136.25] - 147.25 [86.80, 238.70]
## trig (median [IQR]) 118.00 [85.50, 183.00] 100.00 [74.00, 135.00] - 127.50 [101.50, 164.50]
## platelet (median [IQR]) 213.50 [180.75, 329.25] 278.00 [226.50, 336.50] - 145.00 [126.00, 302.00]
## protime (median [IQR]) 10.60 [10.25, 11.35] 10.30 [9.90, 10.70] - 12.20 [11.50, 12.90]
## Stratified by sex:ascites:hepato
## m:0:1 f:0:1 m:1:1
## n 18 123 3
## time (median [IQR]) 1299.50 [821.75, 2088.50] 1741.00 [1083.50, 2391.00] 1217.00 [704.00, 1491.00]
## age (median [IQR]) 58.26 [51.30, 66.61] 49.34 [41.38, 55.63] 67.91 [62.06, 73.17]
## bili (median [IQR]) 2.30 [1.25, 5.20] 2.10 [1.00, 5.00] 1.30 [1.05, 4.20]
## chol (median [IQR]) 361.00 [251.25, 426.75] 322.00 [260.00, 408.00] 197.00 [174.00, 220.00]
## albumin (median [IQR]) 3.71 [3.38, 3.85] 3.48 [3.21, 3.65] 3.03 [2.65, 3.05]
## copper (median [IQR]) 114.50 [81.75, 197.00] 76.00 [50.00, 125.50] 73.00 [58.00, 226.50]
## alk.phos (median [IQR]) 1222.50 [1028.75, 2387.00] 1428.00 [958.00, 2280.00] 983.00 [855.50, 1047.50]
## ast (median [IQR]) 118.58 [84.28, 168.95] 120.90 [90.45, 158.88] 71.00 [58.75, 114.55]
## trig (median [IQR]) 127.00 [95.00, 153.75] 108.50 [89.50, 149.75] 101.50 [75.25, 127.75]
## platelet (median [IQR]) 250.00 [189.50, 298.75] 239.00 [184.50, 306.00] 156.00 [126.50, 184.50]
## protime (median [IQR]) 10.90 [10.35, 11.28] 10.60 [10.00, 11.50] 11.20 [11.10, 12.20]
## Stratified by sex:ascites:hepato
## f:1:1 p test
## n 16
## time (median [IQR]) 341.00 [206.75, 915.75] <0.001 nonnorm
## age (median [IQR]) 54.92 [48.32, 61.36] <0.001 nonnorm
## bili (median [IQR]) 10.60 [4.00, 17.25] <0.001 nonnorm
## chol (median [IQR]) 278.50 [222.00, 382.25] 0.079 nonnorm
## albumin (median [IQR]) 3.03 [2.63, 3.32] <0.001 nonnorm
## copper (median [IQR]) 182.00 [130.50, 215.00] <0.001 nonnorm
## alk.phos (median [IQR]) 1775.50 [1070.25, 3708.05] 0.077 nonnorm
## ast (median [IQR]) 135.97 [105.46, 176.51] 0.022 nonnorm
## trig (median [IQR]) 161.50 [118.00, 188.00] 0.008 nonnorm
## platelet (median [IQR]) 178.00 [138.50, 224.00] <0.001 nonnorm
## protime (median [IQR]) 11.60 [11.07, 12.03] <0.001 nonnorm
## quote
print(contTable, quote = TRUE)
## "Stratified by sex:ascites:hepato"
## "" "m:0:0" "f:0:0" "m:1:0" "f:1:0" "m:0:1"
## "n" "15" "132" "0" "5" "18"
## "time (mean (sd))" "2412.33 (1422.19)" "2375.19 (1020.62)" "-" "1130.20 (1382.64)" "1702.78 (1198.55)"
## "age (mean (sd))" " 51.07 (12.11)" " 48.41 (10.22)" "-" " 64.57 (10.52)" " 58.60 (9.18)"
## "bili (mean (sd))" " 2.24 (1.31)" " 1.61 (2.40)" "-" " 7.14 (7.65)" " 3.37 (2.61)"
## "chol (mean (sd))" " 360.33 (164.98)" " 336.99 (158.86)" "-" " 253.00 (86.81)" " 382.61 (194.31)"
## "albumin (mean (sd))" " 3.72 (0.44)" " 3.67 (0.34)" "-" " 2.85 (0.54)" " 3.59 (0.34)"
## "copper (mean (sd))" " 166.27 (107.94)" " 65.56 (56.66)" "-" " 112.40 (72.72)" " 142.44 (82.94)"
## "alk.phos (mean (sd))" "2839.41 (3424.63)" "1634.45 (1732.65)" "-" "1257.60 (416.42)" "1822.89 (1260.72)"
## "ast (mean (sd))" " 125.02 (43.62)" " 111.35 (52.10)" "-" " 170.83 (118.75)" " 124.49 (49.03)"
## "trig (mean (sd))" " 132.20 (55.55)" " 110.70 (52.29)" "-" " 138.50 (67.34)" " 138.00 (49.34)"
## "platelet (mean (sd))" " 246.57 (88.70)" " 287.36 (87.74)" "-" " 192.80 (116.54)" " 240.94 (86.30)"
## "protime (mean (sd))" " 11.07 (1.19)" " 10.42 (0.89)" "-" " 12.02 (1.16)" " 10.82 (0.63)"
## "Stratified by sex:ascites:hepato"
## "" "f:0:1" "m:1:1" "f:1:1" "p" "test"
## "n" "123" "3" "16" "" ""
## "time (mean (sd))" "1838.28 (1007.36)" "1057.67 (799.01)" " 668.25 (805.64)" "<0.001" ""
## "age (mean (sd))" " 48.71 (9.71)" " 67.52 (11.11)" " 54.92 (8.91)" "<0.001" ""
## "bili (mean (sd))" " 3.97 (4.84)" " 3.07 (3.50)" " 10.97 (7.80)" "<0.001" ""
## "chol (mean (sd))" " 411.14 (298.67)" " 197.00 (65.05)" " 364.50 (247.72)" " 0.210" ""
## "albumin (mean (sd))" " 3.43 (0.39)" " 2.79 (0.45)" " 3.02 (0.45)" "<0.001" ""
## "copper (mean (sd))" " 104.11 (85.01)" " 165.33 (186.51)" " 184.13 (125.71)" "<0.001" ""
## "alk.phos (mean (sd))" "2259.90 (2445.16)" " 941.00 (195.41)" "2522.41 (2043.39)" " 0.109" ""
## "ast (mean (sd))" " 130.47 (60.16)" " 91.87 (58.65)" " 140.36 (43.22)" " 0.032" ""
## "trig (mean (sd))" " 127.48 (60.14)" " 101.50 (74.25)" " 193.71 (145.19)" " 0.001" ""
## "platelet (mean (sd))" " 253.06 (97.99)" " 155.33 (58.00)" " 197.38 (94.71)" "<0.001" ""
## "protime (mean (sd))" " 10.79 (0.96)" " 11.80 (1.22)" " 11.79 (1.09)" "<0.001" ""
## Partially nonnormal
print(contTable, nonnormal = nonNormalVars)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0
## n 15 132 0 5
## time (mean (sd)) 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64)
## age (mean (sd)) 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52)
## bili (median [IQR]) 1.90 [1.55, 2.45] 0.90 [0.60, 1.42] - 2.50 [1.40, 12.60]
## chol (median [IQR]) 317.00 [250.50, 438.00] 296.00 [242.00, 390.00] - 206.00 [200.00, 302.00]
## albumin (mean (sd)) 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54)
## copper (median [IQR]) 158.00 [98.00, 213.50] 52.00 [32.00, 78.50] - 108.00 [58.00, 140.00]
## alk.phos (median [IQR]) 1056.00 [740.00, 3470.70] 1177.50 [793.25, 1689.75] - 1516.00 [918.00, 1523.00]
## ast (mean (sd)) 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75)
## trig (median [IQR]) 118.00 [85.50, 183.00] 100.00 [74.00, 135.00] - 127.50 [101.50, 164.50]
## platelet (mean (sd)) 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54)
## protime (median [IQR]) 10.60 [10.25, 11.35] 10.30 [9.90, 10.70] - 12.20 [11.50, 12.90]
## Stratified by sex:ascites:hepato
## m:0:1 f:0:1 m:1:1
## n 18 123 3
## time (mean (sd)) 1702.78 (1198.55) 1838.28 (1007.36) 1057.67 (799.01)
## age (mean (sd)) 58.60 (9.18) 48.71 (9.71) 67.52 (11.11)
## bili (median [IQR]) 2.30 [1.25, 5.20] 2.10 [1.00, 5.00] 1.30 [1.05, 4.20]
## chol (median [IQR]) 361.00 [251.25, 426.75] 322.00 [260.00, 408.00] 197.00 [174.00, 220.00]
## albumin (mean (sd)) 3.59 (0.34) 3.43 (0.39) 2.79 (0.45)
## copper (median [IQR]) 114.50 [81.75, 197.00] 76.00 [50.00, 125.50] 73.00 [58.00, 226.50]
## alk.phos (median [IQR]) 1222.50 [1028.75, 2387.00] 1428.00 [958.00, 2280.00] 983.00 [855.50, 1047.50]
## ast (mean (sd)) 124.49 (49.03) 130.47 (60.16) 91.87 (58.65)
## trig (median [IQR]) 127.00 [95.00, 153.75] 108.50 [89.50, 149.75] 101.50 [75.25, 127.75]
## platelet (mean (sd)) 240.94 (86.30) 253.06 (97.99) 155.33 (58.00)
## protime (median [IQR]) 10.90 [10.35, 11.28] 10.60 [10.00, 11.50] 11.20 [11.10, 12.20]
## Stratified by sex:ascites:hepato
## f:1:1 p test
## n 16
## time (mean (sd)) 668.25 (805.64) <0.001
## age (mean (sd)) 54.92 (8.91) <0.001
## bili (median [IQR]) 10.60 [4.00, 17.25] <0.001 nonnorm
## chol (median [IQR]) 278.50 [222.00, 382.25] 0.079 nonnorm
## albumin (mean (sd)) 3.02 (0.45) <0.001
## copper (median [IQR]) 182.00 [130.50, 215.00] <0.001 nonnorm
## alk.phos (median [IQR]) 1775.50 [1070.25, 3708.05] 0.077 nonnorm
## ast (mean (sd)) 140.36 (43.22) 0.032
## trig (median [IQR]) 161.50 [118.00, 188.00] 0.008 nonnorm
## platelet (mean (sd)) 197.38 (94.71) <0.001
## protime (median [IQR]) 11.60 [11.07, 12.03] <0.001 nonnorm
## Partially nonnormal median [range]
print(contTable, nonnormal = nonNormalVars, minMax = TRUE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0
## n 15 132 0 5
## time (mean (sd)) 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64)
## age (mean (sd)) 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52)
## bili (median [range]) 1.90 [0.60, 6.00] 0.90 [0.30, 22.50] - 2.50 [1.30, 17.90]
## chol (median [range]) 317.00 [168.00, 660.00] 296.00 [120.00, 1276.00] - 206.00 [175.00, 382.00]
## albumin (mean (sd)) 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54)
## copper (median [range]) 158.00 [13.00, 444.00] 52.00 [4.00, 464.00] - 108.00 [36.00, 220.00]
## alk.phos (median [range]) 1056.00 [516.00, 10396.80] 1177.50 [369.00, 12258.80] - 1516.00 [705.00, 1626.00]
## ast (mean (sd)) 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75)
## trig (median [range]) 118.00 [55.00, 219.00] 100.00 [44.00, 382.00] - 127.50 [70.00, 229.00]
## platelet (mean (sd)) 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54)
## protime (median [range]) 10.60 [9.70, 14.10] 10.30 [9.00, 17.10] - 12.20 [10.30, 13.20]
## Stratified by sex:ascites:hepato
## m:0:1 f:0:1 m:1:1
## n 18 123 3
## time (mean (sd)) 1702.78 (1198.55) 1838.28 (1007.36) 1057.67 (799.01)
## age (mean (sd)) 58.60 (9.18) 48.71 (9.71) 67.52 (11.11)
## bili (median [range]) 2.30 [0.60, 8.60] 2.10 [0.40, 28.00] 1.30 [0.80, 7.10]
## chol (median [range]) 361.00 [178.00, 1000.00] 322.00 [149.00, 1775.00] 197.00 [151.00, 243.00]
## albumin (mean (sd)) 3.59 (0.34) 3.43 (0.39) 2.79 (0.45)
## copper (median [range]) 114.50 [25.00, 290.00] 76.00 [11.00, 588.00] 73.00 [43.00, 380.00]
## alk.phos (median [range]) 1222.50 [681.00, 5719.00] 1428.00 [289.00, 13862.40] 983.00 [728.00, 1112.00]
## ast (mean (sd)) 124.49 (49.03) 130.47 (60.16) 91.87 (58.65)
## trig (median [range]) 127.00 [83.00, 242.00] 108.50 [33.00, 322.00] 101.50 [49.00, 154.00]
## platelet (mean (sd)) 240.94 (86.30) 253.06 (97.99) 155.33 (58.00)
## protime (median [range]) 10.90 [9.80, 12.00] 10.60 [9.20, 13.30] 11.20 [11.00, 13.20]
## Stratified by sex:ascites:hepato
## f:1:1 p test
## n 16
## time (mean (sd)) 668.25 (805.64) <0.001
## age (mean (sd)) 54.92 (8.91) <0.001
## bili (median [range]) 10.60 [1.20, 24.50] <0.001 nonnorm
## chol (median [range]) 278.50 [175.00, 1092.00] 0.079 nonnorm
## albumin (mean (sd)) 3.02 (0.45) <0.001
## copper (median [range]) 182.00 [16.00, 558.00] <0.001 nonnorm
## alk.phos (median [range]) 1775.50 [559.00, 6931.20] 0.077 nonnorm
## ast (mean (sd)) 140.36 (43.22) 0.032
## trig (median [range]) 161.50 [68.00, 598.00] 0.008 nonnorm
## platelet (mean (sd)) 197.38 (94.71) <0.001
## protime (median [range]) 11.60 [10.60, 15.20] <0.001 nonnorm
## test
print(contTable, test = FALSE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1
## n 15 132 0 5 18
## time (mean (sd)) 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64) 1702.78 (1198.55)
## age (mean (sd)) 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52) 58.60 (9.18)
## bili (mean (sd)) 2.24 (1.31) 1.61 (2.40) - 7.14 (7.65) 3.37 (2.61)
## chol (mean (sd)) 360.33 (164.98) 336.99 (158.86) - 253.00 (86.81) 382.61 (194.31)
## albumin (mean (sd)) 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54) 3.59 (0.34)
## copper (mean (sd)) 166.27 (107.94) 65.56 (56.66) - 112.40 (72.72) 142.44 (82.94)
## alk.phos (mean (sd)) 2839.41 (3424.63) 1634.45 (1732.65) - 1257.60 (416.42) 1822.89 (1260.72)
## ast (mean (sd)) 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75) 124.49 (49.03)
## trig (mean (sd)) 132.20 (55.55) 110.70 (52.29) - 138.50 (67.34) 138.00 (49.34)
## platelet (mean (sd)) 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54) 240.94 (86.30)
## protime (mean (sd)) 11.07 (1.19) 10.42 (0.89) - 12.02 (1.16) 10.82 (0.63)
## Stratified by sex:ascites:hepato
## f:0:1 m:1:1 f:1:1
## n 123 3 16
## time (mean (sd)) 1838.28 (1007.36) 1057.67 (799.01) 668.25 (805.64)
## age (mean (sd)) 48.71 (9.71) 67.52 (11.11) 54.92 (8.91)
## bili (mean (sd)) 3.97 (4.84) 3.07 (3.50) 10.97 (7.80)
## chol (mean (sd)) 411.14 (298.67) 197.00 (65.05) 364.50 (247.72)
## albumin (mean (sd)) 3.43 (0.39) 2.79 (0.45) 3.02 (0.45)
## copper (mean (sd)) 104.11 (85.01) 165.33 (186.51) 184.13 (125.71)
## alk.phos (mean (sd)) 2259.90 (2445.16) 941.00 (195.41) 2522.41 (2043.39)
## ast (mean (sd)) 130.47 (60.16) 91.87 (58.65) 140.36 (43.22)
## trig (mean (sd)) 127.48 (60.14) 101.50 (74.25) 193.71 (145.19)
## platelet (mean (sd)) 253.06 (97.99) 155.33 (58.00) 197.38 (94.71)
## protime (mean (sd)) 10.79 (0.96) 11.80 (1.22) 11.79 (1.09)
## pDigits
print(contTable, pDigits = 5)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1
## n 15 132 0 5 18
## time (mean (sd)) 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64) 1702.78 (1198.55)
## age (mean (sd)) 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52) 58.60 (9.18)
## bili (mean (sd)) 2.24 (1.31) 1.61 (2.40) - 7.14 (7.65) 3.37 (2.61)
## chol (mean (sd)) 360.33 (164.98) 336.99 (158.86) - 253.00 (86.81) 382.61 (194.31)
## albumin (mean (sd)) 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54) 3.59 (0.34)
## copper (mean (sd)) 166.27 (107.94) 65.56 (56.66) - 112.40 (72.72) 142.44 (82.94)
## alk.phos (mean (sd)) 2839.41 (3424.63) 1634.45 (1732.65) - 1257.60 (416.42) 1822.89 (1260.72)
## ast (mean (sd)) 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75) 124.49 (49.03)
## trig (mean (sd)) 132.20 (55.55) 110.70 (52.29) - 138.50 (67.34) 138.00 (49.34)
## platelet (mean (sd)) 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54) 240.94 (86.30)
## protime (mean (sd)) 11.07 (1.19) 10.42 (0.89) - 12.02 (1.16) 10.82 (0.63)
## Stratified by sex:ascites:hepato
## f:0:1 m:1:1 f:1:1 p test
## n 123 3 16
## time (mean (sd)) 1838.28 (1007.36) 1057.67 (799.01) 668.25 (805.64) <0.00001
## age (mean (sd)) 48.71 (9.71) 67.52 (11.11) 54.92 (8.91) <0.00001
## bili (mean (sd)) 3.97 (4.84) 3.07 (3.50) 10.97 (7.80) <0.00001
## chol (mean (sd)) 411.14 (298.67) 197.00 (65.05) 364.50 (247.72) 0.21011
## albumin (mean (sd)) 3.43 (0.39) 2.79 (0.45) 3.02 (0.45) <0.00001
## copper (mean (sd)) 104.11 (85.01) 165.33 (186.51) 184.13 (125.71) <0.00001
## alk.phos (mean (sd)) 2259.90 (2445.16) 941.00 (195.41) 2522.41 (2043.39) 0.10866
## ast (mean (sd)) 130.47 (60.16) 91.87 (58.65) 140.36 (43.22) 0.03181
## trig (mean (sd)) 127.48 (60.14) 101.50 (74.25) 193.71 (145.19) 0.00069
## platelet (mean (sd)) 253.06 (97.99) 155.33 (58.00) 197.38 (94.71) 0.00022
## protime (mean (sd)) 10.79 (0.96) 11.80 (1.22) 11.79 (1.09) <0.00001
## No explanation
print(contTable, explain = FALSE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1
## n 15 132 0 5 18 123
## time 2412.33 (1422.19) 2375.19 (1020.62) - 1130.20 (1382.64) 1702.78 (1198.55) 1838.28 (1007.36)
## age 51.07 (12.11) 48.41 (10.22) - 64.57 (10.52) 58.60 (9.18) 48.71 (9.71)
## bili 2.24 (1.31) 1.61 (2.40) - 7.14 (7.65) 3.37 (2.61) 3.97 (4.84)
## chol 360.33 (164.98) 336.99 (158.86) - 253.00 (86.81) 382.61 (194.31) 411.14 (298.67)
## albumin 3.72 (0.44) 3.67 (0.34) - 2.85 (0.54) 3.59 (0.34) 3.43 (0.39)
## copper 166.27 (107.94) 65.56 (56.66) - 112.40 (72.72) 142.44 (82.94) 104.11 (85.01)
## alk.phos 2839.41 (3424.63) 1634.45 (1732.65) - 1257.60 (416.42) 1822.89 (1260.72) 2259.90 (2445.16)
## ast 125.02 (43.62) 111.35 (52.10) - 170.83 (118.75) 124.49 (49.03) 130.47 (60.16)
## trig 132.20 (55.55) 110.70 (52.29) - 138.50 (67.34) 138.00 (49.34) 127.48 (60.14)
## platelet 246.57 (88.70) 287.36 (87.74) - 192.80 (116.54) 240.94 (86.30) 253.06 (97.99)
## protime 11.07 (1.19) 10.42 (0.89) - 12.02 (1.16) 10.82 (0.63) 10.79 (0.96)
## Stratified by sex:ascites:hepato
## m:1:1 f:1:1 p test
## n 3 16
## time 1057.67 (799.01) 668.25 (805.64) <0.001
## age 67.52 (11.11) 54.92 (8.91) <0.001
## bili 3.07 (3.50) 10.97 (7.80) <0.001
## chol 197.00 (65.05) 364.50 (247.72) 0.210
## albumin 2.79 (0.45) 3.02 (0.45) <0.001
## copper 165.33 (186.51) 184.13 (125.71) <0.001
## alk.phos 941.00 (195.41) 2522.41 (2043.39) 0.109
## ast 91.87 (58.65) 140.36 (43.22) 0.032
## trig 101.50 (74.25) 193.71 (145.19) 0.001
## platelet 155.33 (58.00) 197.38 (94.71) <0.001
## protime 11.80 (1.22) 11.79 (1.09) <0.001
Categorical variables
### Define variables
vars <- c("trt","ascites","spiders","edema","stage")
## Strata
strata <- "status"
strataTwoVars <- c("status","sex")
strataThreeVars <- c("sex","ascites","hepato")
## Data and variables
dataFrame <- pbc
exactlVars <- c("ascites","edema")
## Create edema strata that are of sizes 1, 2, and 3
smallDataFrame <- pbc[c(2, 3,4, 1,10,14),]
smallStrata <- "edema"
### Behaviors on correct data format (non-stratified, single variable)
## Creation
catTable <- CreateCatTable(vars = "trt", data = dataFrame)
## print method
catTable
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## summary method
summary(catTable)
## strata: Overall
## var n miss level freq percent cum.percent
## trt 418 106 1 158 50.6 50.6
## 2 154 49.4 100.0
##
## digits
summary(catTable, digits = 5)
## strata: Overall
## var n miss level freq percent cum.percent
## trt 418 106 1 158 50.64103 50.64103
## 2 154 49.35897 100.00000
##
## print method by default
print(catTable)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## format
print(catTable, format = "fp")
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
print(catTable, format = "f")
##
## Overall
## n 418
## trt = 2 154
print(catTable, format = "p")
##
## Overall
## n 418
## trt = 2 (%) 49.4
print(catTable, format = "pf")
##
## Overall
## n 418
## trt = 2 % (freq) 49.4 (154)
## digits
print(catTable, digits = 5)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.35897)
## exact
print(catTable, exact = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## Partially exact
print(catTable, exact = exactlVars)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## quote
print(catTable, quote = TRUE)
## ""
## "" "Overall"
## "n" "418"
## "trt = 2 (%)" "154 (49.4) "
## No test
print(catTable, test = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## pDigits
print(catTable, pDigits = 5)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## showAllLevel
print(catTable, showAllLevels = TRUE)
##
## level Overall
## n 418
## trt (%) 1 158 (50.6)
## 2 154 (49.4)
## explain
print(catTable, explain = FALSE)
##
## Overall
## n 418
## trt = 2 154 (49.4)
## CrossTable
print(catTable, CrossTable = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## print and return object
matObj <- print(catTable, printToggle = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
matObj
##
## Overall
## n "418"
## trt = 2 (%) "154 (49.4) "
## attr(,"vecColWidths")
## Overall
## 3
## do not print and return as object
matObj <- print(catTable, printToggle = FALSE)
matObj
##
## Overall
## n "418"
## trt = 2 (%) "154 (49.4) "
## attr(,"vecColWidths")
## Overall
## 3
### Behaviors on correct data format (non-stratified)
## Creation
catTable <- CreateCatTable(vars = vars, data = dataFrame)
## print method
catTable
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## summary method
summary(catTable)
## strata: Overall
## var n miss level freq percent cum.percent
## trt 418 106 1 158 50.6 50.6
## 2 154 49.4 100.0
##
## ascites 418 106 0 288 92.3 92.3
## 1 24 7.7 100.0
##
## spiders 418 106 0 222 71.2 71.2
## 1 90 28.8 100.0
##
## edema 418 0 0 354 84.7 84.7
## 0.5 44 10.5 95.2
## 1 20 4.8 100.0
##
## stage 418 6 1 21 5.1 5.1
## 2 92 22.3 27.4
## 3 155 37.6 65.0
## 4 144 35.0 100.0
##
## digits
summary(catTable, digits = 5)
## strata: Overall
## var n miss level freq percent cum.percent
## trt 418 106 1 158 50.64103 50.64103
## 2 154 49.35897 100.00000
##
## ascites 418 106 0 288 92.30769 92.30769
## 1 24 7.69231 100.00000
##
## spiders 418 106 0 222 71.15385 71.15385
## 1 90 28.84615 100.00000
##
## edema 418 0 0 354 84.68900 84.68900
## 0.5 44 10.52632 95.21531
## 1 20 4.78469 100.00000
##
## stage 418 6 1 21 5.09709 5.09709
## 2 92 22.33010 27.42718
## 3 155 37.62136 65.04854
## 4 144 34.95146 100.00000
##
## print method by default
print(catTable)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## format
print(catTable, format = "fp")
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
print(catTable, format = "f")
##
## Overall
## n 418
## trt = 2 154
## ascites = 1 24
## spiders = 1 90
## edema
## 0 354
## 0.5 44
## 1 20
## stage
## 1 21
## 2 92
## 3 155
## 4 144
print(catTable, format = "p")
##
## Overall
## n 418
## trt = 2 (%) 49.4
## ascites = 1 (%) 7.7
## spiders = 1 (%) 28.8
## edema (%)
## 0 84.7
## 0.5 10.5
## 1 4.8
## stage (%)
## 1 5.1
## 2 22.3
## 3 37.6
## 4 35.0
print(catTable, format = "pf")
##
## Overall
## n 418
## trt = 2 % (freq) 49.4 (154)
## ascites = 1 % (freq) 7.7 ( 24)
## spiders = 1 % (freq) 28.8 ( 90)
## edema % (freq)
## 0 84.7 (354)
## 0.5 10.5 ( 44)
## 1 4.8 ( 20)
## stage % (freq)
## 1 5.1 ( 21)
## 2 22.3 ( 92)
## 3 37.6 (155)
## 4 35.0 (144)
## digits
print(catTable, digits = 5)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.35897)
## ascites = 1 (%) 24 ( 7.69231)
## spiders = 1 (%) 90 (28.84615)
## edema (%)
## 0 354 (84.68900)
## 0.5 44 (10.52632)
## 1 20 ( 4.78469)
## stage (%)
## 1 21 ( 5.09709)
## 2 92 (22.33010)
## 3 155 (37.62136)
## 4 144 (34.95146)
## exact
print(catTable, exact = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## Partially exact
print(catTable, exact = exactlVars)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## quote
print(catTable, quote = TRUE)
## ""
## "" "Overall"
## "n" "418"
## "trt = 2 (%)" "154 (49.4) "
## "ascites = 1 (%)" " 24 ( 7.7) "
## "spiders = 1 (%)" " 90 (28.8) "
## "edema (%)" ""
## " 0" "354 (84.7) "
## " 0.5" " 44 (10.5) "
## " 1" " 20 ( 4.8) "
## "stage (%)" ""
## " 1" " 21 ( 5.1) "
## " 2" " 92 (22.3) "
## " 3" "155 (37.6) "
## " 4" "144 (35.0) "
## No test
print(catTable, test = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## pDigits
print(catTable, pDigits = 5)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## showAllLevel
print(catTable, showAllLevels = TRUE)
##
## level Overall
## n 418
## trt (%) 1 158 (50.6)
## 2 154 (49.4)
## ascites (%) 0 288 (92.3)
## 1 24 ( 7.7)
## spiders (%) 0 222 (71.2)
## 1 90 (28.8)
## edema (%) 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%) 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## explain
print(catTable, explain = FALSE)
##
## Overall
## n 418
## trt = 2 154 (49.4)
## ascites = 1 24 ( 7.7)
## spiders = 1 90 (28.8)
## edema
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
## CrossTable
print(catTable, CrossTable = TRUE)
##
## Overall
## n 418
## trt = 2 (%) 154 (49.4)
## ascites = 1 (%) 24 ( 7.7)
## spiders = 1 (%) 90 (28.8)
## edema (%)
## 0 354 (84.7)
## 0.5 44 (10.5)
## 1 20 ( 4.8)
## stage (%)
## 1 21 ( 5.1)
## 2 92 (22.3)
## 3 155 (37.6)
## 4 144 (35.0)
### Behaviors on correct data format (stratified, 2-group)
## Creation
catTable <- CreateCatTable(vars = vars, strata = "sex", data = dataFrame)
## print method
catTable
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.421
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 1.000
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.021
## edema (%) 0.777
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## summary method
summary(catTable)
## sex: m
## var n miss level freq percent cum.percent
## trt 44 8 1 21 58.3 58.3
## 2 15 41.7 100.0
##
## ascites 44 8 0 33 91.7 91.7
## 1 3 8.3 100.0
##
## spiders 44 8 0 32 88.9 88.9
## 1 4 11.1 100.0
##
## edema 44 0 0 36 81.8 81.8
## 0.5 5 11.4 93.2
## 1 3 6.8 100.0
##
## stage 44 0 1 3 6.8 6.8
## 2 8 18.2 25.0
## 3 16 36.4 61.4
## 4 17 38.6 100.0
##
## ---------------------------------------------------------------------------------------
## sex: f
## var n miss level freq percent cum.percent
## trt 374 98 1 137 49.6 49.6
## 2 139 50.4 100.0
##
## ascites 374 98 0 255 92.4 92.4
## 1 21 7.6 100.0
##
## spiders 374 98 0 190 68.8 68.8
## 1 86 31.2 100.0
##
## edema 374 0 0 318 85.0 85.0
## 0.5 39 10.4 95.5
## 1 17 4.5 100.0
##
## stage 374 6 1 18 4.9 4.9
## 2 84 22.8 27.7
## 3 139 37.8 65.5
## 4 127 34.5 100.0
##
##
## p-values
## pApprox pExact
## trt 0.42123 0.37743
## ascites 1.00000 0.74738
## spiders 0.02135 0.01094
## edema 0.77662 0.65149
## stage 0.83074 0.77658
## digits
summary(catTable, digits = 5)
## sex: m
## var n miss level freq percent cum.percent
## trt 44 8 1 21 58.33333 58.33333
## 2 15 41.66667 100.00000
##
## ascites 44 8 0 33 91.66667 91.66667
## 1 3 8.33333 100.00000
##
## spiders 44 8 0 32 88.88889 88.88889
## 1 4 11.11111 100.00000
##
## edema 44 0 0 36 81.81818 81.81818
## 0.5 5 11.36364 93.18182
## 1 3 6.81818 100.00000
##
## stage 44 0 1 3 6.81818 6.81818
## 2 8 18.18182 25.00000
## 3 16 36.36364 61.36364
## 4 17 38.63636 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: f
## var n miss level freq percent cum.percent
## trt 374 98 1 137 49.63768 49.63768
## 2 139 50.36232 100.00000
##
## ascites 374 98 0 255 92.39130 92.39130
## 1 21 7.60870 100.00000
##
## spiders 374 98 0 190 68.84058 68.84058
## 1 86 31.15942 100.00000
##
## edema 374 0 0 318 85.02674 85.02674
## 0.5 39 10.42781 95.45455
## 1 17 4.54545 100.00000
##
## stage 374 6 1 18 4.89130 4.89130
## 2 84 22.82609 27.71739
## 3 139 37.77174 65.48913
## 4 127 34.51087 100.00000
##
##
## p-values
## pApprox pExact
## trt 0.42123 0.37743
## ascites 1.00000 0.74738
## spiders 0.02135 0.01094
## edema 0.77662 0.65149
## stage 0.83074 0.77658
## print method by default
print(catTable)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.421
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 1.000
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.021
## edema (%) 0.777
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## format
print(catTable, format = "fp")
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.421
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 1.000
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.021
## edema (%) 0.777
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
print(catTable, format = "f")
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 15 139 0.421
## ascites = 1 3 21 1.000
## spiders = 1 4 86 0.021
## edema 0.777
## 0 36 318
## 0.5 5 39
## 1 3 17
## stage 0.831
## 1 3 18
## 2 8 84
## 3 16 139
## 4 17 127
print(catTable, format = "p")
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 41.7 50.4 0.421
## ascites = 1 (%) 8.3 7.6 1.000
## spiders = 1 (%) 11.1 31.2 0.021
## edema (%) 0.777
## 0 81.8 85.0
## 0.5 11.4 10.4
## 1 6.8 4.5
## stage (%) 0.831
## 1 6.8 4.9
## 2 18.2 22.8
## 3 36.4 37.8
## 4 38.6 34.5
print(catTable, format = "pf")
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 % (freq) 41.7 (15) 50.4 (139) 0.421
## ascites = 1 % (freq) 8.3 ( 3) 7.6 ( 21) 1.000
## spiders = 1 % (freq) 11.1 ( 4) 31.2 ( 86) 0.021
## edema % (freq) 0.777
## 0 81.8 (36) 85.0 (318)
## 0.5 11.4 ( 5) 10.4 ( 39)
## 1 6.8 ( 3) 4.5 ( 17)
## stage % (freq) 0.831
## 1 6.8 ( 3) 4.9 ( 18)
## 2 18.2 ( 8) 22.8 ( 84)
## 3 36.4 (16) 37.8 (139)
## 4 38.6 (17) 34.5 (127)
## digits
print(catTable, digits = 5)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.66667) 139 (50.36232) 0.421
## ascites = 1 (%) 3 ( 8.33333) 21 ( 7.60870) 1.000
## spiders = 1 (%) 4 (11.11111) 86 (31.15942) 0.021
## edema (%) 0.777
## 0 36 (81.81818) 318 (85.02674)
## 0.5 5 (11.36364) 39 (10.42781)
## 1 3 ( 6.81818) 17 ( 4.54545)
## stage (%) 0.831
## 1 3 ( 6.81818) 18 ( 4.89130)
## 2 8 (18.18182) 84 (22.82609)
## 3 16 (36.36364) 139 (37.77174)
## 4 17 (38.63636) 127 (34.51087)
## exact
print(catTable, exact = TRUE)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.377 exact
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 0.747 exact
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.011 exact
## edema (%) 0.651 exact
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.777 exact
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## Partially exact
print(catTable, exact = exactlVars)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.421
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 0.747 exact
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.021
## edema (%) 0.651 exact
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## quote
print(catTable, quote = TRUE)
## "Stratified by sex"
## "" "m" "f" "p" "test"
## "n" "44" "374" "" ""
## "trt = 2 (%)" "15 (41.7) " "139 (50.4) " " 0.421" ""
## "ascites = 1 (%)" " 3 ( 8.3) " " 21 ( 7.6) " " 1.000" ""
## "spiders = 1 (%)" " 4 (11.1) " " 86 (31.2) " " 0.021" ""
## "edema (%)" "" "" " 0.777" ""
## " 0" "36 (81.8) " "318 (85.0) " "" ""
## " 0.5" " 5 (11.4) " " 39 (10.4) " "" ""
## " 1" " 3 ( 6.8) " " 17 ( 4.5) " "" ""
## "stage (%)" "" "" " 0.831" ""
## " 1" " 3 ( 6.8) " " 18 ( 4.9) " "" ""
## " 2" " 8 (18.2) " " 84 (22.8) " "" ""
## " 3" "16 (36.4) " "139 (37.8) " "" ""
## " 4" "17 (38.6) " "127 (34.5) " "" ""
## No test
print(catTable, test = TRUE)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.421
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 1.000
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.021
## edema (%) 0.777
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## pDigits
print(catTable, pDigits = 5)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.42123
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 1.00000
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.02135
## edema (%) 0.77662
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.83074
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## showAllLevel
print(catTable, showAllLevels = TRUE)
## Stratified by sex
## level m f p test
## n 44 374
## trt (%) 1 21 (58.3) 137 (49.6) 0.421
## 2 15 (41.7) 139 (50.4)
## ascites (%) 0 33 (91.7) 255 (92.4) 1.000
## 1 3 ( 8.3) 21 ( 7.6)
## spiders (%) 0 32 (88.9) 190 (68.8) 0.021
## 1 4 (11.1) 86 (31.2)
## edema (%) 0 36 (81.8) 318 (85.0) 0.777
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 1 3 ( 6.8) 18 ( 4.9) 0.831
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## explain
print(catTable, explain = FALSE)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 15 (41.7) 139 (50.4) 0.421
## ascites = 1 3 ( 8.3) 21 ( 7.6) 1.000
## spiders = 1 4 (11.1) 86 (31.2) 0.021
## edema 0.777
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
## CrossTable
print(catTable, CrossTable = TRUE)
## Stratified by sex
## m f p test
## n 44 374
## trt = 2 (%) 15 (41.7) 139 (50.4) 0.421
## ascites = 1 (%) 3 ( 8.3) 21 ( 7.6) 1.000
## spiders = 1 (%) 4 (11.1) 86 (31.2) 0.021
## edema (%) 0.777
## 0 36 (81.8) 318 (85.0)
## 0.5 5 (11.4) 39 (10.4)
## 1 3 ( 6.8) 17 ( 4.5)
## stage (%) 0.831
## 1 3 ( 6.8) 18 ( 4.9)
## 2 8 (18.2) 84 (22.8)
## 3 16 (36.4) 139 (37.8)
## 4 17 (38.6) 127 (34.5)
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex
## trt | m | f | Row Total |
## -------------|-----------|-----------|-----------|
## 1 | 21 | 137 | 158 |
## | 0.421 | 0.055 | |
## | 0.133 | 0.867 | 0.506 |
## | 0.583 | 0.496 | |
## | 0.067 | 0.439 | |
## -------------|-----------|-----------|-----------|
## 2 | 15 | 139 | 154 |
## | 0.432 | 0.056 | |
## | 0.097 | 0.903 | 0.494 |
## | 0.417 | 0.504 | |
## | 0.048 | 0.446 | |
## -------------|-----------|-----------|-----------|
## Column Total | 36 | 276 | 312 |
## | 0.115 | 0.885 | |
## -------------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex
## ascites | m | f | Row Total |
## -------------|-----------|-----------|-----------|
## 0 | 33 | 255 | 288 |
## | 0.002 | 0.000 | |
## | 0.115 | 0.885 | 0.923 |
## | 0.917 | 0.924 | |
## | 0.106 | 0.817 | |
## -------------|-----------|-----------|-----------|
## 1 | 3 | 21 | 24 |
## | 0.019 | 0.003 | |
## | 0.125 | 0.875 | 0.077 |
## | 0.083 | 0.076 | |
## | 0.010 | 0.067 | |
## -------------|-----------|-----------|-----------|
## Column Total | 36 | 276 | 312 |
## | 0.115 | 0.885 | |
## -------------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex
## spiders | m | f | Row Total |
## -------------|-----------|-----------|-----------|
## 0 | 32 | 190 | 222 |
## | 1.591 | 0.208 | |
## | 0.144 | 0.856 | 0.712 |
## | 0.889 | 0.688 | |
## | 0.103 | 0.609 | |
## -------------|-----------|-----------|-----------|
## 1 | 4 | 86 | 90 |
## | 3.925 | 0.512 | |
## | 0.044 | 0.956 | 0.288 |
## | 0.111 | 0.312 | |
## | 0.013 | 0.276 | |
## -------------|-----------|-----------|-----------|
## Column Total | 36 | 276 | 312 |
## | 0.115 | 0.885 | |
## -------------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 418
##
##
## | sex
## edema | m | f | Row Total |
## -------------|-----------|-----------|-----------|
## 0 | 36 | 318 | 354 |
## | 0.043 | 0.005 | |
## | 0.102 | 0.898 | 0.847 |
## | 0.818 | 0.850 | |
## | 0.086 | 0.761 | |
## -------------|-----------|-----------|-----------|
## 0.5 | 5 | 39 | 44 |
## | 0.029 | 0.003 | |
## | 0.114 | 0.886 | 0.105 |
## | 0.114 | 0.104 | |
## | 0.012 | 0.093 | |
## -------------|-----------|-----------|-----------|
## 1 | 3 | 17 | 20 |
## | 0.380 | 0.045 | |
## | 0.150 | 0.850 | 0.048 |
## | 0.068 | 0.045 | |
## | 0.007 | 0.041 | |
## -------------|-----------|-----------|-----------|
## Column Total | 44 | 374 | 418 |
## | 0.105 | 0.895 | |
## -------------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 412
##
##
## | sex
## stage | m | f | Row Total |
## -------------|-----------|-----------|-----------|
## 1 | 3 | 18 | 21 |
## | 0.256 | 0.031 | |
## | 0.143 | 0.857 | 0.051 |
## | 0.068 | 0.049 | |
## | 0.007 | 0.044 | |
## -------------|-----------|-----------|-----------|
## 2 | 8 | 84 | 92 |
## | 0.339 | 0.041 | |
## | 0.087 | 0.913 | 0.223 |
## | 0.182 | 0.228 | |
## | 0.019 | 0.204 | |
## -------------|-----------|-----------|-----------|
## 3 | 16 | 139 | 155 |
## | 0.019 | 0.002 | |
## | 0.103 | 0.897 | 0.376 |
## | 0.364 | 0.378 | |
## | 0.039 | 0.337 | |
## -------------|-----------|-----------|-----------|
## 4 | 17 | 127 | 144 |
## | 0.171 | 0.020 | |
## | 0.118 | 0.882 | 0.350 |
## | 0.386 | 0.345 | |
## | 0.041 | 0.308 | |
## -------------|-----------|-----------|-----------|
## Column Total | 44 | 368 | 412 |
## | 0.107 | 0.893 | |
## -------------|-----------|-----------|-----------|
##
##
### Behaviors on correct data format (stratified, 3-group)
## Creation
catTable <- CreateCatTable(vars = vars, strata = strata, data = dataFrame)
## print method
catTable
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## summary method
summary(catTable)
## status: 0
## var n miss level freq percent cum.percent
## trt 232 64 1 83 49.4 49.4
## 2 85 50.6 100.0
##
## ascites 232 64 0 167 99.4 99.4
## 1 1 0.6 100.0
##
## spiders 232 64 0 135 80.4 80.4
## 1 33 19.6 100.0
##
## edema 232 0 0 216 93.1 93.1
## 0.5 15 6.5 99.6
## 1 1 0.4 100.0
##
## stage 232 2 1 19 8.3 8.3
## 2 64 27.8 36.1
## 3 97 42.2 78.3
## 4 50 21.7 100.0
##
## ---------------------------------------------------------------------------------------
## status: 1
## var n miss level freq percent cum.percent
## trt 25 6 1 10 52.6 52.6
## 2 9 47.4 100.0
##
## ascites 25 6 0 19 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 25 6 0 14 73.7 73.7
## 1 5 26.3 100.0
##
## edema 25 0 0 22 88.0 88.0
## 0.5 3 12.0 100.0
## 1 0 0.0 100.0
##
## stage 25 0 1 0 0.0 0.0
## 2 5 20.0 20.0
## 3 10 40.0 60.0
## 4 10 40.0 100.0
##
## ---------------------------------------------------------------------------------------
## status: 2
## var n miss level freq percent cum.percent
## trt 161 36 1 65 52.0 52.0
## 2 60 48.0 100.0
##
## ascites 161 36 0 102 81.6 81.6
## 1 23 18.4 100.0
##
## spiders 161 36 0 73 58.4 58.4
## 1 52 41.6 100.0
##
## edema 161 0 0 116 72.0 72.0
## 0.5 26 16.1 88.2
## 1 19 11.8 100.0
##
## stage 161 4 1 2 1.3 1.3
## 2 23 14.6 15.9
## 3 48 30.6 46.5
## 4 84 53.5 100.0
##
##
## p-values
## pApprox pExact
## trt 0.89350974940 0.88422188365
## ascites 0.00000004847 0.00000001915
## spiders 0.00021408606 0.00019418862
## edema 0.00000003438 0.00000001955
## stage 0.00000001118 NA
## digits
summary(catTable, digits = 5)
## status: 0
## var n miss level freq percent cum.percent
## trt 232 64 1 83 49.40476 49.40476
## 2 85 50.59524 100.00000
##
## ascites 232 64 0 167 99.40476 99.40476
## 1 1 0.59524 100.00000
##
## spiders 232 64 0 135 80.35714 80.35714
## 1 33 19.64286 100.00000
##
## edema 232 0 0 216 93.10345 93.10345
## 0.5 15 6.46552 99.56897
## 1 1 0.43103 100.00000
##
## stage 232 2 1 19 8.26087 8.26087
## 2 64 27.82609 36.08696
## 3 97 42.17391 78.26087
## 4 50 21.73913 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 1
## var n miss level freq percent cum.percent
## trt 25 6 1 10 52.63158 52.63158
## 2 9 47.36842 100.00000
##
## ascites 25 6 0 19 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 25 6 0 14 73.68421 73.68421
## 1 5 26.31579 100.00000
##
## edema 25 0 0 22 88.00000 88.00000
## 0.5 3 12.00000 100.00000
## 1 0 0.00000 100.00000
##
## stage 25 0 1 0 0.00000 0.00000
## 2 5 20.00000 20.00000
## 3 10 40.00000 60.00000
## 4 10 40.00000 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 2
## var n miss level freq percent cum.percent
## trt 161 36 1 65 52.00000 52.00000
## 2 60 48.00000 100.00000
##
## ascites 161 36 0 102 81.60000 81.60000
## 1 23 18.40000 100.00000
##
## spiders 161 36 0 73 58.40000 58.40000
## 1 52 41.60000 100.00000
##
## edema 161 0 0 116 72.04969 72.04969
## 0.5 26 16.14907 88.19876
## 1 19 11.80124 100.00000
##
## stage 161 4 1 2 1.27389 1.27389
## 2 23 14.64968 15.92357
## 3 48 30.57325 46.49682
## 4 84 53.50318 100.00000
##
##
## p-values
## pApprox pExact
## trt 0.89350974940 0.88422188365
## ascites 0.00000004847 0.00000001915
## spiders 0.00021408606 0.00019418862
## edema 0.00000003438 0.00000001955
## stage 0.00000001118 NA
## print method by default
print(catTable)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## format
print(catTable, format = "fp")
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
print(catTable, format = "f")
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 85 9 60 0.894
## ascites = 1 1 0 23 <0.001
## spiders = 1 33 5 52 <0.001
## edema <0.001
## 0 216 22 116
## 0.5 15 3 26
## 1 1 0 19
## stage <0.001
## 1 19 0 2
## 2 64 5 23
## 3 97 10 48
## 4 50 10 84
print(catTable, format = "p")
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 50.6 47.4 48.0 0.894
## ascites = 1 (%) 0.6 0.0 18.4 <0.001
## spiders = 1 (%) 19.6 26.3 41.6 <0.001
## edema (%) <0.001
## 0 93.1 88.0 72.0
## 0.5 6.5 12.0 16.1
## 1 0.4 0.0 11.8
## stage (%) <0.001
## 1 8.3 0.0 1.3
## 2 27.8 20.0 14.6
## 3 42.2 40.0 30.6
## 4 21.7 40.0 53.5
print(catTable, format = "pf")
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 % (freq) 50.6 ( 85) 47.4 ( 9) 48.0 ( 60) 0.894
## ascites = 1 % (freq) 0.6 ( 1) 0.0 ( 0) 18.4 ( 23) <0.001
## spiders = 1 % (freq) 19.6 ( 33) 26.3 ( 5) 41.6 ( 52) <0.001
## edema % (freq) <0.001
## 0 93.1 (216) 88.0 (22) 72.0 (116)
## 0.5 6.5 ( 15) 12.0 ( 3) 16.1 ( 26)
## 1 0.4 ( 1) 0.0 ( 0) 11.8 ( 19)
## stage % (freq) <0.001
## 1 8.3 ( 19) 0.0 ( 0) 1.3 ( 2)
## 2 27.8 ( 64) 20.0 ( 5) 14.6 ( 23)
## 3 42.2 ( 97) 40.0 (10) 30.6 ( 48)
## 4 21.7 ( 50) 40.0 (10) 53.5 ( 84)
## digits
print(catTable, digits = 5)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.59524) 9 (47.36842) 60 (48.00000) 0.894
## ascites = 1 (%) 1 ( 0.59524) 0 ( 0.00000) 23 (18.40000) <0.001
## spiders = 1 (%) 33 (19.64286) 5 (26.31579) 52 (41.60000) <0.001
## edema (%) <0.001
## 0 216 (93.10345) 22 (88.00000) 116 (72.04969)
## 0.5 15 ( 6.46552) 3 (12.00000) 26 (16.14907)
## 1 1 ( 0.43103) 0 ( 0.00000) 19 (11.80124)
## stage (%) <0.001
## 1 19 ( 8.26087) 0 ( 0.00000) 2 ( 1.27389)
## 2 64 (27.82609) 5 (20.00000) 23 (14.64968)
## 3 97 (42.17391) 10 (40.00000) 48 (30.57325)
## 4 50 (21.73913) 10 (40.00000) 84 (53.50318)
## exact
print(catTable, exact = TRUE)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.884 exact
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001 exact
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001 exact
## edema (%) <0.001 exact
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) NA exact
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## Partially exact
print(catTable, exact = exactlVars)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001 exact
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001 exact
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## quote
print(catTable, quote = TRUE)
## "Stratified by status"
## "" "0" "1" "2" "p" "test"
## "n" "232" "25" "161" "" ""
## "trt = 2 (%)" " 85 (50.6) " " 9 (47.4) " " 60 (48.0) " " 0.894" ""
## "ascites = 1 (%)" " 1 ( 0.6) " " 0 ( 0.0) " " 23 (18.4) " "<0.001" ""
## "spiders = 1 (%)" " 33 (19.6) " " 5 (26.3) " " 52 (41.6) " "<0.001" ""
## "edema (%)" "" "" "" "<0.001" ""
## " 0" "216 (93.1) " "22 (88.0) " "116 (72.0) " "" ""
## " 0.5" " 15 ( 6.5) " " 3 (12.0) " " 26 (16.1) " "" ""
## " 1" " 1 ( 0.4) " " 0 ( 0.0) " " 19 (11.8) " "" ""
## "stage (%)" "" "" "" "<0.001" ""
## " 1" " 19 ( 8.3) " " 0 ( 0.0) " " 2 ( 1.3) " "" ""
## " 2" " 64 (27.8) " " 5 (20.0) " " 23 (14.6) " "" ""
## " 3" " 97 (42.2) " "10 (40.0) " " 48 (30.6) " "" ""
## " 4" " 50 (21.7) " "10 (40.0) " " 84 (53.5) " "" ""
## No test
print(catTable, test = TRUE)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## pDigits
print(catTable, pDigits = 5)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.89351
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.00001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) 0.00021
## edema (%) <0.00001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.00001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## showAllLevel
print(catTable, showAllLevels = TRUE)
## Stratified by status
## level 0 1 2 p test
## n 232 25 161
## trt (%) 1 83 (49.4) 10 ( 52.6) 65 (52.0) 0.894
## 2 85 (50.6) 9 ( 47.4) 60 (48.0)
## ascites (%) 0 167 (99.4) 19 (100.0) 102 (81.6) <0.001
## 1 1 ( 0.6) 0 ( 0.0) 23 (18.4)
## spiders (%) 0 135 (80.4) 14 ( 73.7) 73 (58.4) <0.001
## 1 33 (19.6) 5 ( 26.3) 52 (41.6)
## edema (%) 0 216 (93.1) 22 ( 88.0) 116 (72.0) <0.001
## 0.5 15 ( 6.5) 3 ( 12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3) <0.001
## 2 64 (27.8) 5 ( 20.0) 23 (14.6)
## 3 97 (42.2) 10 ( 40.0) 48 (30.6)
## 4 50 (21.7) 10 ( 40.0) 84 (53.5)
## explain
print(catTable, explain = FALSE)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## CrossTable
print(catTable, CrossTable = TRUE)
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | status
## trt | 0 | 1 | 2 | Row Total |
## -------------|-----------|-----------|-----------|-----------|
## 1 | 83 | 10 | 65 | 158 |
## | 0.051 | 0.015 | 0.046 | |
## | 0.525 | 0.063 | 0.411 | 0.506 |
## | 0.494 | 0.526 | 0.520 | |
## | 0.266 | 0.032 | 0.208 | |
## -------------|-----------|-----------|-----------|-----------|
## 2 | 85 | 9 | 60 | 154 |
## | 0.052 | 0.015 | 0.047 | |
## | 0.552 | 0.058 | 0.390 | 0.494 |
## | 0.506 | 0.474 | 0.480 | |
## | 0.272 | 0.029 | 0.192 | |
## -------------|-----------|-----------|-----------|-----------|
## Column Total | 168 | 19 | 125 | 312 |
## | 0.538 | 0.061 | 0.401 | |
## -------------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | status
## ascites | 0 | 1 | 2 | Row Total |
## -------------|-----------|-----------|-----------|-----------|
## 0 | 167 | 19 | 102 | 288 |
## | 0.917 | 0.122 | 1.553 | |
## | 0.580 | 0.066 | 0.354 | 0.923 |
## | 0.994 | 1.000 | 0.816 | |
## | 0.535 | 0.061 | 0.327 | |
## -------------|-----------|-----------|-----------|-----------|
## 1 | 1 | 0 | 23 | 24 |
## | 11.000 | 1.462 | 18.631 | |
## | 0.042 | 0.000 | 0.958 | 0.077 |
## | 0.006 | 0.000 | 0.184 | |
## | 0.003 | 0.000 | 0.074 | |
## -------------|-----------|-----------|-----------|-----------|
## Column Total | 168 | 19 | 125 | 312 |
## | 0.538 | 0.061 | 0.401 | |
## -------------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | status
## spiders | 0 | 1 | 2 | Row Total |
## -------------|-----------|-----------|-----------|-----------|
## 0 | 135 | 14 | 73 | 222 |
## | 2.000 | 0.017 | 2.858 | |
## | 0.608 | 0.063 | 0.329 | 0.712 |
## | 0.804 | 0.737 | 0.584 | |
## | 0.433 | 0.045 | 0.234 | |
## -------------|-----------|-----------|-----------|-----------|
## 1 | 33 | 5 | 52 | 90 |
## | 4.933 | 0.042 | 7.049 | |
## | 0.367 | 0.056 | 0.578 | 0.288 |
## | 0.196 | 0.263 | 0.416 | |
## | 0.106 | 0.016 | 0.167 | |
## -------------|-----------|-----------|-----------|-----------|
## Column Total | 168 | 19 | 125 | 312 |
## | 0.538 | 0.061 | 0.401 | |
## -------------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 418
##
##
## | status
## edema | 0 | 1 | 2 | Row Total |
## -------------|-----------|-----------|-----------|-----------|
## 0 | 216 | 22 | 116 | 354 |
## | 1.940 | 0.032 | 3.037 | |
## | 0.610 | 0.062 | 0.328 | 0.847 |
## | 0.931 | 0.880 | 0.720 | |
## | 0.517 | 0.053 | 0.278 | |
## -------------|-----------|-----------|-----------|-----------|
## 0.5 | 15 | 3 | 26 | 44 |
## | 3.634 | 0.052 | 4.836 | |
## | 0.341 | 0.068 | 0.591 | 0.105 |
## | 0.065 | 0.120 | 0.161 | |
## | 0.036 | 0.007 | 0.062 | |
## -------------|-----------|-----------|-----------|-----------|
## 1 | 1 | 0 | 19 | 20 |
## | 9.191 | 1.196 | 16.566 | |
## | 0.050 | 0.000 | 0.950 | 0.048 |
## | 0.004 | 0.000 | 0.118 | |
## | 0.002 | 0.000 | 0.045 | |
## -------------|-----------|-----------|-----------|-----------|
## Column Total | 232 | 25 | 161 | 418 |
## | 0.555 | 0.060 | 0.385 | |
## -------------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 412
##
##
## | status
## stage | 0 | 1 | 2 | Row Total |
## -------------|-----------|-----------|-----------|-----------|
## 1 | 19 | 0 | 2 | 21 |
## | 4.517 | 1.274 | 4.502 | |
## | 0.905 | 0.000 | 0.095 | 0.051 |
## | 0.083 | 0.000 | 0.013 | |
## | 0.046 | 0.000 | 0.005 | |
## -------------|-----------|-----------|-----------|-----------|
## 2 | 64 | 5 | 23 | 92 |
## | 3.111 | 0.061 | 4.147 | |
## | 0.696 | 0.054 | 0.250 | 0.223 |
## | 0.278 | 0.200 | 0.146 | |
## | 0.155 | 0.012 | 0.056 | |
## -------------|-----------|-----------|-----------|-----------|
## 3 | 97 | 10 | 48 | 155 |
## | 1.267 | 0.038 | 2.073 | |
## | 0.626 | 0.065 | 0.310 | 0.376 |
## | 0.422 | 0.400 | 0.306 | |
## | 0.235 | 0.024 | 0.117 | |
## -------------|-----------|-----------|-----------|-----------|
## 4 | 50 | 10 | 84 | 144 |
## | 11.487 | 0.182 | 15.460 | |
## | 0.347 | 0.069 | 0.583 | 0.350 |
## | 0.217 | 0.400 | 0.535 | |
## | 0.121 | 0.024 | 0.204 | |
## -------------|-----------|-----------|-----------|-----------|
## Column Total | 230 | 25 | 157 | 412 |
## | 0.558 | 0.061 | 0.381 | |
## -------------|-----------|-----------|-----------|-----------|
##
##
### Behaviors on correct data format (stratified, 2-variable)
## Creation
catTable <- CreateCatTable(vars = vars, strata = strataTwoVars, data = dataFrame)
## print method
catTable
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema (%) <0.001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## summary method
summary(catTable)
## status: 0
## sex: m
## var n miss level freq percent cum.percent
## trt 17 6 1 4 36.4 36.4
## 2 7 63.6 100.0
##
## ascites 17 6 0 10 90.9 90.9
## 1 1 9.1 100.0
##
## spiders 17 6 0 9 81.8 81.8
## 1 2 18.2 100.0
##
## edema 17 0 0 16 94.1 94.1
## 0.5 1 5.9 100.0
## 1 0 0.0 100.0
##
## stage 17 0 1 2 11.8 11.8
## 2 3 17.6 29.4
## 3 5 29.4 58.8
## 4 7 41.2 100.0
##
## ---------------------------------------------------------------------------------------
## status: 1
## sex: m
## var n miss level freq percent cum.percent
## trt 3 0 1 3 100.0 100.0
## 2 0 0.0 100.0
##
## ascites 3 0 0 3 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 3 0 0 3 100.0 100.0
## 1 0 0.0 100.0
##
## edema 3 0 0 3 100.0 100.0
## 0.5 0 0.0 100.0
## 1 0 0.0 100.0
##
## stage 3 0 1 0 0.0 0.0
## 2 0 0.0 0.0
## 3 2 66.7 66.7
## 4 1 33.3 100.0
##
## ---------------------------------------------------------------------------------------
## status: 2
## sex: m
## var n miss level freq percent cum.percent
## trt 24 2 1 14 63.6 63.6
## 2 8 36.4 100.0
##
## ascites 24 2 0 20 90.9 90.9
## 1 2 9.1 100.0
##
## spiders 24 2 0 20 90.9 90.9
## 1 2 9.1 100.0
##
## edema 24 0 0 17 70.8 70.8
## 0.5 4 16.7 87.5
## 1 3 12.5 100.0
##
## stage 24 0 1 1 4.2 4.2
## 2 5 20.8 25.0
## 3 9 37.5 62.5
## 4 9 37.5 100.0
##
## ---------------------------------------------------------------------------------------
## status: 0
## sex: f
## var n miss level freq percent cum.percent
## trt 215 58 1 79 50.3 50.3
## 2 78 49.7 100.0
##
## ascites 215 58 0 157 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 215 58 0 126 80.3 80.3
## 1 31 19.7 100.0
##
## edema 215 0 0 200 93.0 93.0
## 0.5 14 6.5 99.5
## 1 1 0.5 100.0
##
## stage 215 2 1 17 8.0 8.0
## 2 61 28.6 36.6
## 3 92 43.2 79.8
## 4 43 20.2 100.0
##
## ---------------------------------------------------------------------------------------
## status: 1
## sex: f
## var n miss level freq percent cum.percent
## trt 22 6 1 7 43.8 43.8
## 2 9 56.2 100.0
##
## ascites 22 6 0 16 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 22 6 0 11 68.8 68.8
## 1 5 31.2 100.0
##
## edema 22 0 0 19 86.4 86.4
## 0.5 3 13.6 100.0
## 1 0 0.0 100.0
##
## stage 22 0 1 0 0.0 0.0
## 2 5 22.7 22.7
## 3 8 36.4 59.1
## 4 9 40.9 100.0
##
## ---------------------------------------------------------------------------------------
## status: 2
## sex: f
## var n miss level freq percent cum.percent
## trt 137 34 1 51 49.5 49.5
## 2 52 50.5 100.0
##
## ascites 137 34 0 82 79.6 79.6
## 1 21 20.4 100.0
##
## spiders 137 34 0 53 51.5 51.5
## 1 50 48.5 100.0
##
## edema 137 0 0 99 72.3 72.3
## 0.5 22 16.1 88.3
## 1 16 11.7 100.0
##
## stage 137 4 1 1 0.8 0.8
## 2 18 13.5 14.3
## 3 39 29.3 43.6
## 4 75 56.4 100.0
##
##
## p-values
## pApprox pExact
## trt 0.3396357021 0.38716295778
## ascites 0.0000003538 0.00000003965
## spiders 0.0000063333 0.00000475377
## edema 0.0000109942 NA
## stage 0.0000008605 NA
## digits
summary(catTable, digits = 5)
## status: 0
## sex: m
## var n miss level freq percent cum.percent
## trt 17 6 1 4 36.36364 36.36364
## 2 7 63.63636 100.00000
##
## ascites 17 6 0 10 90.90909 90.90909
## 1 1 9.09091 100.00000
##
## spiders 17 6 0 9 81.81818 81.81818
## 1 2 18.18182 100.00000
##
## edema 17 0 0 16 94.11765 94.11765
## 0.5 1 5.88235 100.00000
## 1 0 0.00000 100.00000
##
## stage 17 0 1 2 11.76471 11.76471
## 2 3 17.64706 29.41176
## 3 5 29.41176 58.82353
## 4 7 41.17647 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 1
## sex: m
## var n miss level freq percent cum.percent
## trt 3 0 1 3 100.00000 100.00000
## 2 0 0.00000 100.00000
##
## ascites 3 0 0 3 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 3 0 0 3 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## edema 3 0 0 3 100.00000 100.00000
## 0.5 0 0.00000 100.00000
## 1 0 0.00000 100.00000
##
## stage 3 0 1 0 0.00000 0.00000
## 2 0 0.00000 0.00000
## 3 2 66.66667 66.66667
## 4 1 33.33333 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 2
## sex: m
## var n miss level freq percent cum.percent
## trt 24 2 1 14 63.63636 63.63636
## 2 8 36.36364 100.00000
##
## ascites 24 2 0 20 90.90909 90.90909
## 1 2 9.09091 100.00000
##
## spiders 24 2 0 20 90.90909 90.90909
## 1 2 9.09091 100.00000
##
## edema 24 0 0 17 70.83333 70.83333
## 0.5 4 16.66667 87.50000
## 1 3 12.50000 100.00000
##
## stage 24 0 1 1 4.16667 4.16667
## 2 5 20.83333 25.00000
## 3 9 37.50000 62.50000
## 4 9 37.50000 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 0
## sex: f
## var n miss level freq percent cum.percent
## trt 215 58 1 79 50.31847 50.31847
## 2 78 49.68153 100.00000
##
## ascites 215 58 0 157 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 215 58 0 126 80.25478 80.25478
## 1 31 19.74522 100.00000
##
## edema 215 0 0 200 93.02326 93.02326
## 0.5 14 6.51163 99.53488
## 1 1 0.46512 100.00000
##
## stage 215 2 1 17 7.98122 7.98122
## 2 61 28.63850 36.61972
## 3 92 43.19249 79.81221
## 4 43 20.18779 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 1
## sex: f
## var n miss level freq percent cum.percent
## trt 22 6 1 7 43.75000 43.75000
## 2 9 56.25000 100.00000
##
## ascites 22 6 0 16 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 22 6 0 11 68.75000 68.75000
## 1 5 31.25000 100.00000
##
## edema 22 0 0 19 86.36364 86.36364
## 0.5 3 13.63636 100.00000
## 1 0 0.00000 100.00000
##
## stage 22 0 1 0 0.00000 0.00000
## 2 5 22.72727 22.72727
## 3 8 36.36364 59.09091
## 4 9 40.90909 100.00000
##
## ---------------------------------------------------------------------------------------
## status: 2
## sex: f
## var n miss level freq percent cum.percent
## trt 137 34 1 51 49.51456 49.51456
## 2 52 50.48544 100.00000
##
## ascites 137 34 0 82 79.61165 79.61165
## 1 21 20.38835 100.00000
##
## spiders 137 34 0 53 51.45631 51.45631
## 1 50 48.54369 100.00000
##
## edema 137 0 0 99 72.26277 72.26277
## 0.5 22 16.05839 88.32117
## 1 16 11.67883 100.00000
##
## stage 137 4 1 1 0.75188 0.75188
## 2 18 13.53383 14.28571
## 3 39 29.32331 43.60902
## 4 75 56.39098 100.00000
##
##
## p-values
## pApprox pExact
## trt 0.3396357021 0.38716295778
## ascites 0.0000003538 0.00000003965
## spiders 0.0000063333 0.00000475377
## edema 0.0000109942 NA
## stage 0.0000008605 NA
## print method by default
print(catTable)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema (%) <0.001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## format
print(catTable, format = "fp")
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema (%) <0.001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
print(catTable, format = "f")
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 7 0 8 78 9 52 0.340
## ascites = 1 1 0 2 0 0 21 <0.001
## spiders = 1 2 0 2 31 5 50 <0.001
## edema <0.001
## 0 16 3 17 200 19 99
## 0.5 1 0 4 14 3 22
## 1 0 0 3 1 0 16
## stage <0.001
## 1 2 0 1 17 0 1
## 2 3 0 5 61 5 18
## 3 5 2 9 92 8 39
## 4 7 1 9 43 9 75
print(catTable, format = "p")
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 63.6 0.0 36.4 49.7 56.2 50.5 0.340
## ascites = 1 (%) 9.1 0.0 9.1 0.0 0.0 20.4 <0.001
## spiders = 1 (%) 18.2 0.0 9.1 19.7 31.2 48.5 <0.001
## edema (%) <0.001
## 0 94.1 100.0 70.8 93.0 86.4 72.3
## 0.5 5.9 0.0 16.7 6.5 13.6 16.1
## 1 0.0 0.0 12.5 0.5 0.0 11.7
## stage (%) <0.001
## 1 11.8 0.0 4.2 8.0 0.0 0.8
## 2 17.6 0.0 20.8 28.6 22.7 13.5
## 3 29.4 66.7 37.5 43.2 36.4 29.3
## 4 41.2 33.3 37.5 20.2 40.9 56.4
print(catTable, format = "pf")
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 % (freq) 63.6 ( 7) 0.0 (0) 36.4 ( 8) 49.7 ( 78) 56.2 ( 9) 50.5 (52) 0.340
## ascites = 1 % (freq) 9.1 ( 1) 0.0 (0) 9.1 ( 2) 0.0 ( 0) 0.0 ( 0) 20.4 (21) <0.001
## spiders = 1 % (freq) 18.2 ( 2) 0.0 (0) 9.1 ( 2) 19.7 ( 31) 31.2 ( 5) 48.5 (50) <0.001
## edema % (freq) <0.001
## 0 94.1 (16) 100.0 (3) 70.8 (17) 93.0 (200) 86.4 (19) 72.3 (99)
## 0.5 5.9 ( 1) 0.0 (0) 16.7 ( 4) 6.5 ( 14) 13.6 ( 3) 16.1 (22)
## 1 0.0 ( 0) 0.0 (0) 12.5 ( 3) 0.5 ( 1) 0.0 ( 0) 11.7 (16)
## stage % (freq) <0.001
## 1 11.8 ( 2) 0.0 (0) 4.2 ( 1) 8.0 ( 17) 0.0 ( 0) 0.8 ( 1)
## 2 17.6 ( 3) 0.0 (0) 20.8 ( 5) 28.6 ( 61) 22.7 ( 5) 13.5 (18)
## 3 29.4 ( 5) 66.7 (2) 37.5 ( 9) 43.2 ( 92) 36.4 ( 8) 29.3 (39)
## 4 41.2 ( 7) 33.3 (1) 37.5 ( 9) 20.2 ( 43) 40.9 ( 9) 56.4 (75)
## digits
print(catTable, digits = 5)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.63636) 0 ( 0.00000) 8 (36.36364) 78 (49.68153) 9 (56.25000) 52 (50.48544) 0.340
## ascites = 1 (%) 1 ( 9.09091) 0 ( 0.00000) 2 ( 9.09091) 0 ( 0.00000) 0 ( 0.00000) 21 (20.38835) <0.001
## spiders = 1 (%) 2 (18.18182) 0 ( 0.00000) 2 ( 9.09091) 31 (19.74522) 5 (31.25000) 50 (48.54369) <0.001
## edema (%) <0.001
## 0 16 (94.11765) 3 (100.00000) 17 (70.83333) 200 (93.02326) 19 (86.36364) 99 (72.26277)
## 0.5 1 ( 5.88235) 0 ( 0.00000) 4 (16.66667) 14 ( 6.51163) 3 (13.63636) 22 (16.05839)
## 1 0 ( 0.00000) 0 ( 0.00000) 3 (12.50000) 1 ( 0.46512) 0 ( 0.00000) 16 (11.67883)
## stage (%) <0.001
## 1 2 (11.76471) 0 ( 0.00000) 1 ( 4.16667) 17 ( 7.98122) 0 ( 0.00000) 1 ( 0.75188)
## 2 3 (17.64706) 0 ( 0.00000) 5 (20.83333) 61 (28.63850) 5 (22.72727) 18 (13.53383)
## 3 5 (29.41176) 2 ( 66.66667) 9 (37.50000) 92 (43.19249) 8 (36.36364) 39 (29.32331)
## 4 7 (41.17647) 1 ( 33.33333) 9 (37.50000) 43 (20.18779) 9 (40.90909) 75 (56.39098)
## Stratified by status:sex
## test
## n
## trt = 2 (%)
## ascites = 1 (%)
## spiders = 1 (%)
## edema (%)
## 0
## 0.5
## 1
## stage (%)
## 1
## 2
## 3
## 4
## exact
print(catTable, exact = TRUE)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.387 exact
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001 exact
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001 exact
## edema (%) NA exact
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) NA exact
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## Partially exact
print(catTable, exact = exactlVars)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001 exact
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema (%) NA exact
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## quote
print(catTable, quote = TRUE)
## "Stratified by status:sex"
## "" "0:m" "1:m" "2:m" "0:f" "1:f" "2:f" "p" "test"
## "n" "17" "3" "24" "215" "22" "137" "" ""
## "trt = 2 (%)" " 7 (63.6) " "0 ( 0.0) " " 8 (36.4) " " 78 (49.7) " " 9 (56.2) " "52 (50.5) " " 0.340" ""
## "ascites = 1 (%)" " 1 ( 9.1) " "0 ( 0.0) " " 2 ( 9.1) " " 0 ( 0.0) " " 0 ( 0.0) " "21 (20.4) " "<0.001" ""
## "spiders = 1 (%)" " 2 (18.2) " "0 ( 0.0) " " 2 ( 9.1) " " 31 (19.7) " " 5 (31.2) " "50 (48.5) " "<0.001" ""
## "edema (%)" "" "" "" "" "" "" "<0.001" ""
## " 0" "16 (94.1) " "3 (100.0) " "17 (70.8) " "200 (93.0) " "19 (86.4) " "99 (72.3) " "" ""
## " 0.5" " 1 ( 5.9) " "0 ( 0.0) " " 4 (16.7) " " 14 ( 6.5) " " 3 (13.6) " "22 (16.1) " "" ""
## " 1" " 0 ( 0.0) " "0 ( 0.0) " " 3 (12.5) " " 1 ( 0.5) " " 0 ( 0.0) " "16 (11.7) " "" ""
## "stage (%)" "" "" "" "" "" "" "<0.001" ""
## " 1" " 2 (11.8) " "0 ( 0.0) " " 1 ( 4.2) " " 17 ( 8.0) " " 0 ( 0.0) " " 1 ( 0.8) " "" ""
## " 2" " 3 (17.6) " "0 ( 0.0) " " 5 (20.8) " " 61 (28.6) " " 5 (22.7) " "18 (13.5) " "" ""
## " 3" " 5 (29.4) " "2 ( 66.7) " " 9 (37.5) " " 92 (43.2) " " 8 (36.4) " "39 (29.3) " "" ""
## " 4" " 7 (41.2) " "1 ( 33.3) " " 9 (37.5) " " 43 (20.2) " " 9 (40.9) " "75 (56.4) " "" ""
## No test
print(catTable, test = TRUE)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema (%) <0.001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## pDigits
print(catTable, pDigits = 5)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.33964
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.00001
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) 0.00001
## edema (%) 0.00001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.00001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## showAllLevel
print(catTable, showAllLevels = TRUE)
## Stratified by status:sex
## level 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt (%) 1 4 (36.4) 3 (100.0) 14 (63.6) 79 ( 50.3) 7 ( 43.8) 51 (49.5) 0.340
## 2 7 (63.6) 0 ( 0.0) 8 (36.4) 78 ( 49.7) 9 ( 56.2) 52 (50.5)
## ascites (%) 0 10 (90.9) 3 (100.0) 20 (90.9) 157 (100.0) 16 (100.0) 82 (79.6) <0.001
## 1 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4)
## spiders (%) 0 9 (81.8) 3 (100.0) 20 (90.9) 126 ( 80.3) 11 ( 68.8) 53 (51.5) <0.001
## 1 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 ( 19.7) 5 ( 31.2) 50 (48.5)
## edema (%) 0 16 (94.1) 3 (100.0) 17 (70.8) 200 ( 93.0) 19 ( 86.4) 99 (72.3) <0.001
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 ( 13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8) <0.001
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 ( 28.6) 5 ( 22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 ( 43.2) 8 ( 36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 ( 20.2) 9 ( 40.9) 75 (56.4)
## explain
print(catTable, explain = FALSE)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001
## spiders = 1 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema <0.001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
## CrossTable
print(catTable, CrossTable = TRUE)
## Stratified by status:sex
## 0:m 1:m 2:m 0:f 1:f 2:f p test
## n 17 3 24 215 22 137
## trt = 2 (%) 7 (63.6) 0 ( 0.0) 8 (36.4) 78 (49.7) 9 (56.2) 52 (50.5) 0.340
## ascites = 1 (%) 1 ( 9.1) 0 ( 0.0) 2 ( 9.1) 0 ( 0.0) 0 ( 0.0) 21 (20.4) <0.001
## spiders = 1 (%) 2 (18.2) 0 ( 0.0) 2 ( 9.1) 31 (19.7) 5 (31.2) 50 (48.5) <0.001
## edema (%) <0.001
## 0 16 (94.1) 3 (100.0) 17 (70.8) 200 (93.0) 19 (86.4) 99 (72.3)
## 0.5 1 ( 5.9) 0 ( 0.0) 4 (16.7) 14 ( 6.5) 3 (13.6) 22 (16.1)
## 1 0 ( 0.0) 0 ( 0.0) 3 (12.5) 1 ( 0.5) 0 ( 0.0) 16 (11.7)
## stage (%) <0.001
## 1 2 (11.8) 0 ( 0.0) 1 ( 4.2) 17 ( 8.0) 0 ( 0.0) 1 ( 0.8)
## 2 3 (17.6) 0 ( 0.0) 5 (20.8) 61 (28.6) 5 (22.7) 18 (13.5)
## 3 5 (29.4) 2 ( 66.7) 9 (37.5) 92 (43.2) 8 (36.4) 39 (29.3)
## 4 7 (41.2) 1 ( 33.3) 9 (37.5) 43 (20.2) 9 (40.9) 75 (56.4)
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | status:sex
## trt | 0:m | 1:m | 2:m | 0:f | 1:f | 2:f | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 4 | 3 | 14 | 79 | 7 | 51 | 158 |
## | 0.443 | 1.443 | 0.734 | 0.003 | 0.150 | 0.026 | |
## | 0.025 | 0.019 | 0.089 | 0.500 | 0.044 | 0.323 | 0.506 |
## | 0.364 | 1.000 | 0.636 | 0.503 | 0.438 | 0.495 | |
## | 0.013 | 0.010 | 0.045 | 0.253 | 0.022 | 0.163 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 2 | 7 | 0 | 8 | 78 | 9 | 52 | 154 |
## | 0.454 | 1.481 | 0.753 | 0.003 | 0.154 | 0.026 | |
## | 0.045 | 0.000 | 0.052 | 0.506 | 0.058 | 0.338 | 0.494 |
## | 0.636 | 0.000 | 0.364 | 0.497 | 0.562 | 0.505 | |
## | 0.022 | 0.000 | 0.026 | 0.250 | 0.029 | 0.167 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 11 | 3 | 22 | 157 | 16 | 103 | 312 |
## | 0.035 | 0.010 | 0.071 | 0.503 | 0.051 | 0.330 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | status:sex
## ascites | 0:m | 1:m | 2:m | 0:f | 1:f | 2:f | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0 | 10 | 3 | 20 | 157 | 16 | 82 | 288 |
## | 0.002 | 0.019 | 0.005 | 1.006 | 0.103 | 1.799 | |
## | 0.035 | 0.010 | 0.069 | 0.545 | 0.056 | 0.285 | 0.923 |
## | 0.909 | 1.000 | 0.909 | 1.000 | 1.000 | 0.796 | |
## | 0.032 | 0.010 | 0.064 | 0.503 | 0.051 | 0.263 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 1 | 0 | 2 | 0 | 0 | 21 | 24 |
## | 0.028 | 0.231 | 0.056 | 12.077 | 1.231 | 21.583 | |
## | 0.042 | 0.000 | 0.083 | 0.000 | 0.000 | 0.875 | 0.077 |
## | 0.091 | 0.000 | 0.091 | 0.000 | 0.000 | 0.204 | |
## | 0.003 | 0.000 | 0.006 | 0.000 | 0.000 | 0.067 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 11 | 3 | 22 | 157 | 16 | 103 | 312 |
## | 0.035 | 0.010 | 0.071 | 0.503 | 0.051 | 0.330 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | status:sex
## spiders | 0:m | 1:m | 2:m | 0:f | 1:f | 2:f | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0 | 9 | 3 | 20 | 126 | 11 | 53 | 222 |
## | 0.176 | 0.351 | 1.207 | 1.828 | 0.013 | 5.616 | |
## | 0.041 | 0.014 | 0.090 | 0.568 | 0.050 | 0.239 | 0.712 |
## | 0.818 | 1.000 | 0.909 | 0.803 | 0.688 | 0.515 | |
## | 0.029 | 0.010 | 0.064 | 0.404 | 0.035 | 0.170 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 2 | 0 | 2 | 31 | 5 | 50 | 90 |
## | 0.434 | 0.865 | 2.976 | 4.508 | 0.032 | 13.854 | |
## | 0.022 | 0.000 | 0.022 | 0.344 | 0.056 | 0.556 | 0.288 |
## | 0.182 | 0.000 | 0.091 | 0.197 | 0.312 | 0.485 | |
## | 0.006 | 0.000 | 0.006 | 0.099 | 0.016 | 0.160 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 11 | 3 | 22 | 157 | 16 | 103 | 312 |
## | 0.035 | 0.010 | 0.071 | 0.503 | 0.051 | 0.330 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 418
##
##
## | status:sex
## edema | 0:m | 1:m | 2:m | 0:f | 1:f | 2:f | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0 | 16 | 3 | 17 | 200 | 19 | 99 | 354 |
## | 0.178 | 0.083 | 0.544 | 1.763 | 0.007 | 2.498 | |
## | 0.045 | 0.008 | 0.048 | 0.565 | 0.054 | 0.280 | 0.847 |
## | 0.941 | 1.000 | 0.708 | 0.930 | 0.864 | 0.723 | |
## | 0.038 | 0.007 | 0.041 | 0.478 | 0.045 | 0.237 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0.5 | 1 | 0 | 4 | 14 | 3 | 22 | 44 |
## | 0.348 | 0.316 | 0.860 | 3.292 | 0.202 | 3.983 | |
## | 0.023 | 0.000 | 0.091 | 0.318 | 0.068 | 0.500 | 0.105 |
## | 0.059 | 0.000 | 0.167 | 0.065 | 0.136 | 0.161 | |
## | 0.002 | 0.000 | 0.010 | 0.033 | 0.007 | 0.053 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 0 | 0 | 3 | 1 | 0 | 16 | 20 |
## | 0.813 | 0.144 | 2.986 | 8.384 | 1.053 | 13.609 | |
## | 0.000 | 0.000 | 0.150 | 0.050 | 0.000 | 0.800 | 0.048 |
## | 0.000 | 0.000 | 0.125 | 0.005 | 0.000 | 0.117 | |
## | 0.000 | 0.000 | 0.007 | 0.002 | 0.000 | 0.038 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 17 | 3 | 24 | 215 | 22 | 137 | 418 |
## | 0.041 | 0.007 | 0.057 | 0.514 | 0.053 | 0.328 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 412
##
##
## | status:sex
## stage | 0:m | 1:m | 2:m | 0:f | 1:f | 2:f | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 2 | 0 | 1 | 17 | 0 | 1 | 21 |
## | 1.483 | 0.153 | 0.041 | 3.476 | 1.121 | 4.927 | |
## | 0.095 | 0.000 | 0.048 | 0.810 | 0.000 | 0.048 | 0.051 |
## | 0.118 | 0.000 | 0.042 | 0.080 | 0.000 | 0.008 | |
## | 0.005 | 0.000 | 0.002 | 0.041 | 0.000 | 0.002 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 2 | 3 | 0 | 5 | 61 | 5 | 18 | 92 |
## | 0.167 | 0.670 | 0.024 | 3.796 | 0.002 | 4.608 | |
## | 0.033 | 0.000 | 0.054 | 0.663 | 0.054 | 0.196 | 0.223 |
## | 0.176 | 0.000 | 0.208 | 0.286 | 0.227 | 0.135 | |
## | 0.007 | 0.000 | 0.012 | 0.148 | 0.012 | 0.044 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 3 | 5 | 2 | 9 | 92 | 8 | 39 | 155 |
## | 0.305 | 0.673 | 0.000 | 1.757 | 0.009 | 2.434 | |
## | 0.032 | 0.013 | 0.058 | 0.594 | 0.052 | 0.252 | 0.376 |
## | 0.294 | 0.667 | 0.375 | 0.432 | 0.364 | 0.293 | |
## | 0.012 | 0.005 | 0.022 | 0.223 | 0.019 | 0.095 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 4 | 7 | 1 | 9 | 43 | 9 | 75 | 144 |
## | 0.188 | 0.002 | 0.045 | 13.283 | 0.223 | 17.491 | |
## | 0.049 | 0.007 | 0.062 | 0.299 | 0.062 | 0.521 | 0.350 |
## | 0.412 | 0.333 | 0.375 | 0.202 | 0.409 | 0.564 | |
## | 0.017 | 0.002 | 0.022 | 0.104 | 0.022 | 0.182 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 17 | 3 | 24 | 213 | 22 | 133 | 412 |
## | 0.041 | 0.007 | 0.058 | 0.517 | 0.053 | 0.323 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
### Behaviors on correct data format (stratified, 3-variable)
## Creation
catTable <- CreateCatTable(vars = vars, strata = strataThreeVars, data = dataFrame)
## print method
catTable
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## summary method
summary(catTable)
## sex: m
## ascites: 0
## hepato: 0
## var n miss level freq percent cum.percent
## trt 15 0 1 9 60.0 60.0
## 2 6 40.0 100.0
##
## ascites 15 0 0 15 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 15 0 0 14 93.3 93.3
## 1 1 6.7 100.0
##
## edema 15 0 0 13 86.7 86.7
## 0.5 1 6.7 93.3
## 1 1 6.7 100.0
##
## stage 15 0 1 3 20.0 20.0
## 2 3 20.0 40.0
## 3 7 46.7 86.7
## 4 2 13.3 100.0
##
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 0
## var n miss level freq percent cum.percent
## trt 132 0 1 73 55.3 55.3
## 2 59 44.7 100.0
##
## ascites 132 0 0 132 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 132 0 0 111 84.1 84.1
## 1 21 15.9 100.0
##
## edema 132 0 0 123 93.2 93.2
## 0.5 8 6.1 99.2
## 1 1 0.8 100.0
##
## stage 132 0 1 13 9.8 9.8
## 2 45 34.1 43.9
## 3 59 44.7 88.6
## 4 15 11.4 100.0
##
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 0
## NULL
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 0
## var n miss level freq percent cum.percent
## trt 5 0 1 3 60.0 60.0
## 2 2 40.0 100.0
##
## ascites 5 0 0 0 0.0 0.0
## 1 5 100.0 100.0
##
## spiders 5 0 0 4 80.0 80.0
## 1 1 20.0 100.0
##
## edema 5 0 0 2 40.0 40.0
## 0.5 0 0.0 40.0
## 1 3 60.0 100.0
##
## stage 5 0 1 0 0.0 0.0
## 2 0 0.0 0.0
## 3 1 20.0 20.0
## 4 4 80.0 100.0
##
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 0
## hepato: 1
## var n miss level freq percent cum.percent
## trt 18 0 1 11 61.1 61.1
## 2 7 38.9 100.0
##
## ascites 18 0 0 18 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 18 0 0 16 88.9 88.9
## 1 2 11.1 100.0
##
## edema 18 0 0 15 83.3 83.3
## 0.5 3 16.7 100.0
## 1 0 0.0 100.0
##
## stage 18 0 1 0 0.0 0.0
## 2 3 16.7 16.7
## 3 5 27.8 44.4
## 4 10 55.6 100.0
##
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 1
## var n miss level freq percent cum.percent
## trt 123 0 1 51 41.5 41.5
## 2 72 58.5 100.0
##
## ascites 123 0 0 123 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 123 0 0 70 56.9 56.9
## 1 53 43.1 100.0
##
## edema 123 0 0 106 86.2 86.2
## 0.5 13 10.6 96.7
## 1 4 3.3 100.0
##
## stage 123 0 1 0 0.0 0.0
## 2 14 11.4 11.4
## 3 48 39.0 50.4
## 4 61 49.6 100.0
##
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 1
## var n miss level freq percent cum.percent
## trt 3 0 1 1 33.3 33.3
## 2 2 66.7 100.0
##
## ascites 3 0 0 0 0.0 0.0
## 1 3 100.0 100.0
##
## spiders 3 0 0 2 66.7 66.7
## 1 1 33.3 100.0
##
## edema 3 0 0 1 33.3 33.3
## 0.5 0 0.0 33.3
## 1 2 66.7 100.0
##
## stage 3 0 1 0 0.0 0.0
## 2 0 0.0 0.0
## 3 0 0.0 0.0
## 4 3 100.0 100.0
##
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 1
## var n miss level freq percent cum.percent
## trt 16 0 1 10 62.5 62.5
## 2 6 37.5 100.0
##
## ascites 16 0 0 0 0.0 0.0
## 1 16 100.0 100.0
##
## spiders 16 0 0 5 31.2 31.2
## 1 11 68.8 100.0
##
## edema 16 0 0 3 18.8 18.8
## 0.5 4 25.0 43.8
## 1 9 56.2 100.0
##
## stage 16 0 1 0 0.0 0.0
## 2 2 12.5 12.5
## 3 0 0.0 12.5
## 4 14 87.5 100.0
##
##
## p-values
## pApprox pExact
## trt NaN 2.142e-01
## ascites NaN 2.124e-36
## spiders NaN NA
## edema NaN NA
## stage NaN NA
## digits
summary(catTable, digits = 5)
## sex: m
## ascites: 0
## hepato: 0
## var n miss level freq percent cum.percent
## trt 15 0 1 9 60.00000 60.00000
## 2 6 40.00000 100.00000
##
## ascites 15 0 0 15 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 15 0 0 14 93.33333 93.33333
## 1 1 6.66667 100.00000
##
## edema 15 0 0 13 86.66667 86.66667
## 0.5 1 6.66667 93.33333
## 1 1 6.66667 100.00000
##
## stage 15 0 1 3 20.00000 20.00000
## 2 3 20.00000 40.00000
## 3 7 46.66667 86.66667
## 4 2 13.33333 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 0
## var n miss level freq percent cum.percent
## trt 132 0 1 73 55.30303 55.30303
## 2 59 44.69697 100.00000
##
## ascites 132 0 0 132 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 132 0 0 111 84.09091 84.09091
## 1 21 15.90909 100.00000
##
## edema 132 0 0 123 93.18182 93.18182
## 0.5 8 6.06061 99.24242
## 1 1 0.75758 100.00000
##
## stage 132 0 1 13 9.84848 9.84848
## 2 45 34.09091 43.93939
## 3 59 44.69697 88.63636
## 4 15 11.36364 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 0
## NULL
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 0
## var n miss level freq percent cum.percent
## trt 5 0 1 3 60.00000 60.00000
## 2 2 40.00000 100.00000
##
## ascites 5 0 0 0 0.00000 0.00000
## 1 5 100.00000 100.00000
##
## spiders 5 0 0 4 80.00000 80.00000
## 1 1 20.00000 100.00000
##
## edema 5 0 0 2 40.00000 40.00000
## 0.5 0 0.00000 40.00000
## 1 3 60.00000 100.00000
##
## stage 5 0 1 0 0.00000 0.00000
## 2 0 0.00000 0.00000
## 3 1 20.00000 20.00000
## 4 4 80.00000 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 0
## hepato: 1
## var n miss level freq percent cum.percent
## trt 18 0 1 11 61.11111 61.11111
## 2 7 38.88889 100.00000
##
## ascites 18 0 0 18 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 18 0 0 16 88.88889 88.88889
## 1 2 11.11111 100.00000
##
## edema 18 0 0 15 83.33333 83.33333
## 0.5 3 16.66667 100.00000
## 1 0 0.00000 100.00000
##
## stage 18 0 1 0 0.00000 0.00000
## 2 3 16.66667 16.66667
## 3 5 27.77778 44.44444
## 4 10 55.55556 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 0
## hepato: 1
## var n miss level freq percent cum.percent
## trt 123 0 1 51 41.46341 41.46341
## 2 72 58.53659 100.00000
##
## ascites 123 0 0 123 100.00000 100.00000
## 1 0 0.00000 100.00000
##
## spiders 123 0 0 70 56.91057 56.91057
## 1 53 43.08943 100.00000
##
## edema 123 0 0 106 86.17886 86.17886
## 0.5 13 10.56911 96.74797
## 1 4 3.25203 100.00000
##
## stage 123 0 1 0 0.00000 0.00000
## 2 14 11.38211 11.38211
## 3 48 39.02439 50.40650
## 4 61 49.59350 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: m
## ascites: 1
## hepato: 1
## var n miss level freq percent cum.percent
## trt 3 0 1 1 33.33333 33.33333
## 2 2 66.66667 100.00000
##
## ascites 3 0 0 0 0.00000 0.00000
## 1 3 100.00000 100.00000
##
## spiders 3 0 0 2 66.66667 66.66667
## 1 1 33.33333 100.00000
##
## edema 3 0 0 1 33.33333 33.33333
## 0.5 0 0.00000 33.33333
## 1 2 66.66667 100.00000
##
## stage 3 0 1 0 0.00000 0.00000
## 2 0 0.00000 0.00000
## 3 0 0.00000 0.00000
## 4 3 100.00000 100.00000
##
## ---------------------------------------------------------------------------------------
## sex: f
## ascites: 1
## hepato: 1
## var n miss level freq percent cum.percent
## trt 16 0 1 10 62.50000 62.50000
## 2 6 37.50000 100.00000
##
## ascites 16 0 0 0 0.00000 0.00000
## 1 16 100.00000 100.00000
##
## spiders 16 0 0 5 31.25000 31.25000
## 1 11 68.75000 100.00000
##
## edema 16 0 0 3 18.75000 18.75000
## 0.5 4 25.00000 43.75000
## 1 9 56.25000 100.00000
##
## stage 16 0 1 0 0.00000 0.00000
## 2 2 12.50000 12.50000
## 3 0 0.00000 12.50000
## 4 14 87.50000 100.00000
##
##
## p-values
## pApprox pExact
## trt NaN 2.142e-01
## ascites NaN 2.124e-36
## spiders NaN NA
## edema NaN NA
## stage NaN NA
## print method by default
print(catTable)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## format
print(catTable, format = "fp")
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
print(catTable, format = "f")
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 6 59 - 2 7 72 2 6 NaN
## ascites = 1 0 0 - 5 0 0 3 16 NaN
## spiders = 1 1 21 - 1 2 53 1 11 NaN
## edema - NaN
## 0 13 123 - 2 15 106 1 3
## 0.5 1 8 - 0 3 13 0 4
## 1 1 1 - 3 0 4 2 9
## stage - NaN
## 1 3 13 - 0 0 0 0 0
## 2 3 45 - 0 3 14 0 2
## 3 7 59 - 1 5 48 0 0
## 4 2 15 - 4 10 61 3 14
print(catTable, format = "p")
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 40.0 44.7 - 40.0 38.9 58.5 66.7 37.5 NaN
## ascites = 1 (%) 0.0 0.0 - 100.0 0.0 0.0 100.0 100.0 NaN
## spiders = 1 (%) 6.7 15.9 - 20.0 11.1 43.1 33.3 68.8 NaN
## edema (%) - NaN
## 0 86.7 93.2 - 40.0 83.3 86.2 33.3 18.8
## 0.5 6.7 6.1 - 0.0 16.7 10.6 0.0 25.0
## 1 6.7 0.8 - 60.0 0.0 3.3 66.7 56.2
## stage (%) - NaN
## 1 20.0 9.8 - 0.0 0.0 0.0 0.0 0.0
## 2 20.0 34.1 - 0.0 16.7 11.4 0.0 12.5
## 3 46.7 44.7 - 20.0 27.8 39.0 0.0 0.0
## 4 13.3 11.4 - 80.0 55.6 49.6 100.0 87.5
print(catTable, format = "pf")
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p
## n 15 132 0 5 18 123 3 16
## trt = 2 % (freq) 40.0 ( 6) 44.7 ( 59) - 40.0 (2) 38.9 ( 7) 58.5 ( 72) 66.7 (2) 37.5 ( 6) NaN
## ascites = 1 % (freq) 0.0 ( 0) 0.0 ( 0) - 100.0 (5) 0.0 ( 0) 0.0 ( 0) 100.0 (3) 100.0 (16) NaN
## spiders = 1 % (freq) 6.7 ( 1) 15.9 ( 21) - 20.0 (1) 11.1 ( 2) 43.1 ( 53) 33.3 (1) 68.8 (11) NaN
## edema % (freq) - NaN
## 0 86.7 (13) 93.2 (123) - 40.0 (2) 83.3 (15) 86.2 (106) 33.3 (1) 18.8 ( 3)
## 0.5 6.7 ( 1) 6.1 ( 8) - 0.0 (0) 16.7 ( 3) 10.6 ( 13) 0.0 (0) 25.0 ( 4)
## 1 6.7 ( 1) 0.8 ( 1) - 60.0 (3) 0.0 ( 0) 3.3 ( 4) 66.7 (2) 56.2 ( 9)
## stage % (freq) - NaN
## 1 20.0 ( 3) 9.8 ( 13) - 0.0 (0) 0.0 ( 0) 0.0 ( 0) 0.0 (0) 0.0 ( 0)
## 2 20.0 ( 3) 34.1 ( 45) - 0.0 (0) 16.7 ( 3) 11.4 ( 14) 0.0 (0) 12.5 ( 2)
## 3 46.7 ( 7) 44.7 ( 59) - 20.0 (1) 27.8 ( 5) 39.0 ( 48) 0.0 (0) 0.0 ( 0)
## 4 13.3 ( 2) 11.4 ( 15) - 80.0 (4) 55.6 (10) 49.6 ( 61) 100.0 (3) 87.5 (14)
## Stratified by sex:ascites:hepato
## test
## n
## trt = 2 % (freq)
## ascites = 1 % (freq)
## spiders = 1 % (freq)
## edema % (freq)
## 0
## 0.5
## 1
## stage % (freq)
## 1
## 2
## 3
## 4
## digits
print(catTable, digits = 5)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1
## n 15 132 0 5 18 123 3
## trt = 2 (%) 6 (40.00000) 59 (44.69697) - 2 ( 40.00000) 7 (38.88889) 72 (58.53659) 2 ( 66.66667)
## ascites = 1 (%) 0 ( 0.00000) 0 ( 0.00000) - 5 (100.00000) 0 ( 0.00000) 0 ( 0.00000) 3 (100.00000)
## spiders = 1 (%) 1 ( 6.66667) 21 (15.90909) - 1 ( 20.00000) 2 (11.11111) 53 (43.08943) 1 ( 33.33333)
## edema (%) -
## 0 13 (86.66667) 123 (93.18182) - 2 ( 40.00000) 15 (83.33333) 106 (86.17886) 1 ( 33.33333)
## 0.5 1 ( 6.66667) 8 ( 6.06061) - 0 ( 0.00000) 3 (16.66667) 13 (10.56911) 0 ( 0.00000)
## 1 1 ( 6.66667) 1 ( 0.75758) - 3 ( 60.00000) 0 ( 0.00000) 4 ( 3.25203) 2 ( 66.66667)
## stage (%) -
## 1 3 (20.00000) 13 ( 9.84848) - 0 ( 0.00000) 0 ( 0.00000) 0 ( 0.00000) 0 ( 0.00000)
## 2 3 (20.00000) 45 (34.09091) - 0 ( 0.00000) 3 (16.66667) 14 (11.38211) 0 ( 0.00000)
## 3 7 (46.66667) 59 (44.69697) - 1 ( 20.00000) 5 (27.77778) 48 (39.02439) 0 ( 0.00000)
## 4 2 (13.33333) 15 (11.36364) - 4 ( 80.00000) 10 (55.55556) 61 (49.59350) 3 (100.00000)
## Stratified by sex:ascites:hepato
## f:1:1 p test
## n 16
## trt = 2 (%) 6 ( 37.50000) NaN
## ascites = 1 (%) 16 (100.00000) NaN
## spiders = 1 (%) 11 ( 68.75000) NaN
## edema (%) NaN
## 0 3 ( 18.75000)
## 0.5 4 ( 25.00000)
## 1 9 ( 56.25000)
## stage (%) NaN
## 1 0 ( 0.00000)
## 2 2 ( 12.50000)
## 3 0 ( 0.00000)
## 4 14 ( 87.50000)
## exact
print(catTable, exact = TRUE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) 0.214
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) <0.001
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NA
## edema (%) - NA
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NA
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## Stratified by sex:ascites:hepato
## test
## n
## trt = 2 (%) exact
## ascites = 1 (%) exact
## spiders = 1 (%) exact
## edema (%) exact
## 0
## 0.5
## 1
## stage (%) exact
## 1
## 2
## 3
## 4
## Partially exact
print(catTable, exact = exactlVars)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) <0.001
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NA
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## Stratified by sex:ascites:hepato
## test
## n
## trt = 2 (%)
## ascites = 1 (%) exact
## spiders = 1 (%)
## edema (%) exact
## 0
## 0.5
## 1
## stage (%)
## 1
## 2
## 3
## 4
## quote
print(catTable, quote = TRUE)
## "Stratified by sex:ascites:hepato"
## "" "m:0:0" "f:0:0" "m:1:0" "f:1:0" "m:0:1" "f:0:1" "m:1:1"
## "n" "15" "132" "0" "5" "18" "123" "3"
## "trt = 2 (%)" " 6 (40.0) " " 59 (44.7) " "-" "2 ( 40.0) " " 7 (38.9) " " 72 (58.5) " "2 ( 66.7) "
## "ascites = 1 (%)" " 0 ( 0.0) " " 0 ( 0.0) " "-" "5 (100.0) " " 0 ( 0.0) " " 0 ( 0.0) " "3 (100.0) "
## "spiders = 1 (%)" " 1 ( 6.7) " " 21 (15.9) " "-" "1 ( 20.0) " " 2 (11.1) " " 53 (43.1) " "1 ( 33.3) "
## "edema (%)" "" "" "-" "" "" "" ""
## " 0" "13 (86.7) " "123 (93.2) " "-" "2 ( 40.0) " "15 (83.3) " "106 (86.2) " "1 ( 33.3) "
## " 0.5" " 1 ( 6.7) " " 8 ( 6.1) " "-" "0 ( 0.0) " " 3 (16.7) " " 13 (10.6) " "0 ( 0.0) "
## " 1" " 1 ( 6.7) " " 1 ( 0.8) " "-" "3 ( 60.0) " " 0 ( 0.0) " " 4 ( 3.3) " "2 ( 66.7) "
## "stage (%)" "" "" "-" "" "" "" ""
## " 1" " 3 (20.0) " " 13 ( 9.8) " "-" "0 ( 0.0) " " 0 ( 0.0) " " 0 ( 0.0) " "0 ( 0.0) "
## " 2" " 3 (20.0) " " 45 (34.1) " "-" "0 ( 0.0) " " 3 (16.7) " " 14 (11.4) " "0 ( 0.0) "
## " 3" " 7 (46.7) " " 59 (44.7) " "-" "1 ( 20.0) " " 5 (27.8) " " 48 (39.0) " "0 ( 0.0) "
## " 4" " 2 (13.3) " " 15 (11.4) " "-" "4 ( 80.0) " "10 (55.6) " " 61 (49.6) " "3 (100.0) "
## "Stratified by sex:ascites:hepato"
## "" "f:1:1" "p" "test"
## "n" "16" "" ""
## "trt = 2 (%)" " 6 ( 37.5) " " NaN" ""
## "ascites = 1 (%)" "16 (100.0) " " NaN" ""
## "spiders = 1 (%)" "11 ( 68.8) " " NaN" ""
## "edema (%)" "" " NaN" ""
## " 0" " 3 ( 18.8) " "" ""
## " 0.5" " 4 ( 25.0) " "" ""
## " 1" " 9 ( 56.2) " "" ""
## "stage (%)" "" " NaN" ""
## " 1" " 0 ( 0.0) " "" ""
## " 2" " 2 ( 12.5) " "" ""
## " 3" " 0 ( 0.0) " "" ""
## " 4" "14 ( 87.5) " "" ""
## No test
print(catTable, test = TRUE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## pDigits
print(catTable, pDigits = 5)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## showAllLevel
print(catTable, showAllLevels = TRUE)
## Stratified by sex:ascites:hepato
## level m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p
## n 15 132 0 5 18 123 3 16
## trt (%) 1 9 ( 60.0) 73 ( 55.3) - 3 ( 60.0) 11 ( 61.1) 51 ( 41.5) 1 ( 33.3) 10 ( 62.5) NaN
## 2 6 ( 40.0) 59 ( 44.7) - 2 ( 40.0) 7 ( 38.9) 72 ( 58.5) 2 ( 66.7) 6 ( 37.5)
## ascites (%) 0 15 (100.0) 132 (100.0) - 0 ( 0.0) 18 (100.0) 123 (100.0) 0 ( 0.0) 0 ( 0.0) NaN
## 1 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0)
## spiders (%) 0 14 ( 93.3) 111 ( 84.1) - 4 ( 80.0) 16 ( 88.9) 70 ( 56.9) 2 ( 66.7) 5 ( 31.2) NaN
## 1 1 ( 6.7) 21 ( 15.9) - 1 ( 20.0) 2 ( 11.1) 53 ( 43.1) 1 ( 33.3) 11 ( 68.8)
## edema (%) 0 13 ( 86.7) 123 ( 93.2) - 2 ( 40.0) 15 ( 83.3) 106 ( 86.2) 1 ( 33.3) 3 ( 18.8) NaN
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 ( 16.7) 13 ( 10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) 1 3 ( 20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) NaN
## 2 3 ( 20.0) 45 ( 34.1) - 0 ( 0.0) 3 ( 16.7) 14 ( 11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 ( 46.7) 59 ( 44.7) - 1 ( 20.0) 5 ( 27.8) 48 ( 39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 ( 13.3) 15 ( 11.4) - 4 ( 80.0) 10 ( 55.6) 61 ( 49.6) 3 (100.0) 14 ( 87.5)
## Stratified by sex:ascites:hepato
## test
## n
## trt (%)
##
## ascites (%)
##
## spiders (%)
##
## edema (%)
##
##
## stage (%)
##
##
##
## explain
print(catTable, explain = FALSE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
## CrossTable
print(catTable, CrossTable = TRUE)
## Stratified by sex:ascites:hepato
## m:0:0 f:0:0 m:1:0 f:1:0 m:0:1 f:0:1 m:1:1 f:1:1 p test
## n 15 132 0 5 18 123 3 16
## trt = 2 (%) 6 (40.0) 59 (44.7) - 2 ( 40.0) 7 (38.9) 72 (58.5) 2 ( 66.7) 6 ( 37.5) NaN
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) - 5 (100.0) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 16 (100.0) NaN
## spiders = 1 (%) 1 ( 6.7) 21 (15.9) - 1 ( 20.0) 2 (11.1) 53 (43.1) 1 ( 33.3) 11 ( 68.8) NaN
## edema (%) - NaN
## 0 13 (86.7) 123 (93.2) - 2 ( 40.0) 15 (83.3) 106 (86.2) 1 ( 33.3) 3 ( 18.8)
## 0.5 1 ( 6.7) 8 ( 6.1) - 0 ( 0.0) 3 (16.7) 13 (10.6) 0 ( 0.0) 4 ( 25.0)
## 1 1 ( 6.7) 1 ( 0.8) - 3 ( 60.0) 0 ( 0.0) 4 ( 3.3) 2 ( 66.7) 9 ( 56.2)
## stage (%) - NaN
## 1 3 (20.0) 13 ( 9.8) - 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0) 0 ( 0.0)
## 2 3 (20.0) 45 (34.1) - 0 ( 0.0) 3 (16.7) 14 (11.4) 0 ( 0.0) 2 ( 12.5)
## 3 7 (46.7) 59 (44.7) - 1 ( 20.0) 5 (27.8) 48 (39.0) 0 ( 0.0) 0 ( 0.0)
## 4 2 (13.3) 15 (11.4) - 4 ( 80.0) 10 (55.6) 61 (49.6) 3 (100.0) 14 ( 87.5)
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex:ascites:hepato
## trt | m:0:0 | f:0:0 | m:1:0 | f:1:0 | m:0:1 | f:0:1 | m:1:1 | f:1:1 | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 9 | 73 | 0 | 3 | 11 | 51 | 1 | 10 | 158 |
## | 0.259 | 0.567 | NaN | 0.086 | 0.390 | 2.046 | 0.177 | 0.444 | |
## | 0.057 | 0.462 | 0.000 | 0.019 | 0.070 | 0.323 | 0.006 | 0.063 | 0.506 |
## | 0.600 | 0.553 | NaN | 0.600 | 0.611 | 0.415 | 0.333 | 0.625 | |
## | 0.029 | 0.234 | 0.000 | 0.010 | 0.035 | 0.163 | 0.003 | 0.032 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 2 | 6 | 59 | 0 | 2 | 7 | 72 | 2 | 6 | 154 |
## | 0.266 | 0.581 | NaN | 0.089 | 0.400 | 2.099 | 0.182 | 0.456 | |
## | 0.039 | 0.383 | 0.000 | 0.013 | 0.045 | 0.468 | 0.013 | 0.039 | 0.494 |
## | 0.400 | 0.447 | NaN | 0.400 | 0.389 | 0.585 | 0.667 | 0.375 | |
## | 0.019 | 0.189 | 0.000 | 0.006 | 0.022 | 0.231 | 0.006 | 0.019 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 15 | 132 | 0 | 5 | 18 | 123 | 3 | 16 | 312 |
## | 0.048 | 0.423 | 0.000 | 0.016 | 0.058 | 0.394 | 0.010 | 0.051 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex:ascites:hepato
## ascites | m:0:0 | f:0:0 | m:1:0 | f:1:0 | m:0:1 | f:0:1 | m:1:1 | f:1:1 | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0 | 15 | 132 | 0 | 0 | 18 | 123 | 0 | 0 | 288 |
## | 0.096 | 0.846 | NaN | 4.615 | 0.115 | 0.788 | 2.769 | 14.769 | |
## | 0.052 | 0.458 | 0.000 | 0.000 | 0.062 | 0.427 | 0.000 | 0.000 | 0.923 |
## | 1.000 | 1.000 | NaN | 0.000 | 1.000 | 1.000 | 0.000 | 0.000 | |
## | 0.048 | 0.423 | 0.000 | 0.000 | 0.058 | 0.394 | 0.000 | 0.000 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 0 | 0 | 0 | 5 | 0 | 0 | 3 | 16 | 24 |
## | 1.154 | 10.154 | NaN | 55.385 | 1.385 | 9.462 | 33.231 | 177.231 | |
## | 0.000 | 0.000 | 0.000 | 0.208 | 0.000 | 0.000 | 0.125 | 0.667 | 0.077 |
## | 0.000 | 0.000 | NaN | 1.000 | 0.000 | 0.000 | 1.000 | 1.000 | |
## | 0.000 | 0.000 | 0.000 | 0.016 | 0.000 | 0.000 | 0.010 | 0.051 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 15 | 132 | 0 | 5 | 18 | 123 | 3 | 16 | 312 |
## | 0.048 | 0.423 | 0.000 | 0.016 | 0.058 | 0.394 | 0.010 | 0.051 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex:ascites:hepato
## spiders | m:0:0 | f:0:0 | m:1:0 | f:1:0 | m:0:1 | f:0:1 | m:1:1 | f:1:1 | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0 | 14 | 111 | 0 | 4 | 16 | 70 | 2 | 5 | 222 |
## | 1.037 | 3.105 | NaN | 0.055 | 0.796 | 3.507 | 0.008 | 3.581 | |
## | 0.063 | 0.500 | 0.000 | 0.018 | 0.072 | 0.315 | 0.009 | 0.023 | 0.712 |
## | 0.933 | 0.841 | NaN | 0.800 | 0.889 | 0.569 | 0.667 | 0.312 | |
## | 0.045 | 0.356 | 0.000 | 0.013 | 0.051 | 0.224 | 0.006 | 0.016 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 1 | 21 | 0 | 1 | 2 | 53 | 1 | 11 | 90 |
## | 2.558 | 7.659 | NaN | 0.136 | 1.963 | 8.650 | 0.021 | 8.832 | |
## | 0.011 | 0.233 | 0.000 | 0.011 | 0.022 | 0.589 | 0.011 | 0.122 | 0.288 |
## | 0.067 | 0.159 | NaN | 0.200 | 0.111 | 0.431 | 0.333 | 0.688 | |
## | 0.003 | 0.067 | 0.000 | 0.003 | 0.006 | 0.170 | 0.003 | 0.035 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 15 | 132 | 0 | 5 | 18 | 123 | 3 | 16 | 312 |
## | 0.048 | 0.423 | 0.000 | 0.016 | 0.058 | 0.394 | 0.010 | 0.051 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex:ascites:hepato
## edema | m:0:0 | f:0:0 | m:1:0 | f:1:0 | m:0:1 | f:0:1 | m:1:1 | f:1:1 | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0 | 13 | 123 | 0 | 2 | 15 | 106 | 1 | 3 | 263 |
## | 0.010 | 1.237 | NaN | 1.164 | 0.002 | 0.052 | 0.924 | 8.154 | |
## | 0.049 | 0.468 | 0.000 | 0.008 | 0.057 | 0.403 | 0.004 | 0.011 | 0.843 |
## | 0.867 | 0.932 | NaN | 0.400 | 0.833 | 0.862 | 0.333 | 0.188 | |
## | 0.042 | 0.394 | 0.000 | 0.006 | 0.048 | 0.340 | 0.003 | 0.010 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 0.5 | 1 | 8 | 0 | 0 | 3 | 13 | 0 | 4 | 29 |
## | 0.111 | 1.486 | NaN | 0.465 | 1.052 | 0.215 | 0.279 | 4.246 | |
## | 0.034 | 0.276 | 0.000 | 0.000 | 0.103 | 0.448 | 0.000 | 0.138 | 0.093 |
## | 0.067 | 0.061 | NaN | 0.000 | 0.167 | 0.106 | 0.000 | 0.250 | |
## | 0.003 | 0.026 | 0.000 | 0.000 | 0.010 | 0.042 | 0.000 | 0.013 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 1 | 1 | 0 | 3 | 0 | 4 | 2 | 9 | 20 |
## | 0.002 | 6.580 | NaN | 22.401 | 1.154 | 1.914 | 16.992 | 62.001 | |
## | 0.050 | 0.050 | 0.000 | 0.150 | 0.000 | 0.200 | 0.100 | 0.450 | 0.064 |
## | 0.067 | 0.008 | NaN | 0.600 | 0.000 | 0.033 | 0.667 | 0.562 | |
## | 0.003 | 0.003 | 0.000 | 0.010 | 0.000 | 0.013 | 0.006 | 0.029 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 15 | 132 | 0 | 5 | 18 | 123 | 3 | 16 | 312 |
## | 0.048 | 0.423 | 0.000 | 0.016 | 0.058 | 0.394 | 0.010 | 0.051 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
##
##
## Cell Contents
## |-------------------------|
## | N |
## | Chi-square contribution |
## | N / Row Total |
## | N / Col Total |
## | N / Table Total |
## |-------------------------|
##
##
## Total Observations in Table: 312
##
##
## | sex:ascites:hepato
## stage | m:0:0 | f:0:0 | m:1:0 | f:1:0 | m:0:1 | f:0:1 | m:1:1 | f:1:1 | Row Total |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 1 | 3 | 13 | 0 | 0 | 0 | 0 | 0 | 0 | 16 |
## | 6.469 | 5.735 | NaN | 0.256 | 0.923 | 6.308 | 0.154 | 0.821 | |
## | 0.188 | 0.812 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.051 |
## | 0.200 | 0.098 | NaN | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | |
## | 0.010 | 0.042 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 2 | 3 | 45 | 0 | 0 | 3 | 14 | 0 | 2 | 67 |
## | 0.015 | 9.784 | NaN | 1.074 | 0.194 | 5.834 | 0.644 | 0.600 | |
## | 0.045 | 0.672 | 0.000 | 0.000 | 0.045 | 0.209 | 0.000 | 0.030 | 0.215 |
## | 0.200 | 0.341 | NaN | 0.000 | 0.167 | 0.114 | 0.000 | 0.125 | |
## | 0.010 | 0.144 | 0.000 | 0.000 | 0.010 | 0.045 | 0.000 | 0.006 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 3 | 7 | 59 | 0 | 1 | 5 | 48 | 0 | 0 | 120 |
## | 0.263 | 1.334 | NaN | 0.443 | 0.534 | 0.010 | 1.154 | 6.154 | |
## | 0.058 | 0.492 | 0.000 | 0.008 | 0.042 | 0.400 | 0.000 | 0.000 | 0.385 |
## | 0.467 | 0.447 | NaN | 0.200 | 0.278 | 0.390 | 0.000 | 0.000 | |
## | 0.022 | 0.189 | 0.000 | 0.003 | 0.016 | 0.154 | 0.000 | 0.000 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## 4 | 2 | 15 | 0 | 4 | 10 | 61 | 3 | 14 | 109 |
## | 2.004 | 20.994 | NaN | 2.906 | 2.191 | 7.564 | 3.635 | 12.654 | |
## | 0.018 | 0.138 | 0.000 | 0.037 | 0.092 | 0.560 | 0.028 | 0.128 | 0.349 |
## | 0.133 | 0.114 | NaN | 0.800 | 0.556 | 0.496 | 1.000 | 0.875 | |
## | 0.006 | 0.048 | 0.000 | 0.013 | 0.032 | 0.196 | 0.010 | 0.045 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
## Column Total | 15 | 132 | 0 | 5 | 18 | 123 | 3 | 16 | 312 |
## | 0.048 | 0.423 | 0.000 | 0.016 | 0.058 | 0.394 | 0.010 | 0.051 | |
## -------------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|-----------|
##
##
Continuous: Behaviors on wrong data format
### Behaviors on wrong data format
## Not a data frame
contTable <- CreateContTable(vars = vars, strata = strata, data = "dataFrame")
## Error: The data argument needs to be a data frame (no quote).
## Invalid variables
contTable <- CreateContTable(vars = c(vars,"wrong_var1","wrong_var2"), strata = strata, data = dataFrame)
## Warning: The data frame does not have wrong_var1 wrong_var2 Dropped
contTable
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt (mean (sd)) 1.51 (0.50) 1.47 (0.51) 1.48 (0.50) 0.894
## ascites (mean (sd)) 0.01 (0.08) 0.00 (0.00) 0.18 (0.39) <0.001
## spiders (mean (sd)) 0.20 (0.40) 0.26 (0.45) 0.42 (0.49) <0.001
## edema (mean (sd)) 0.04 (0.14) 0.06 (0.17) 0.20 (0.35) <0.001
## stage (mean (sd)) 2.77 (0.88) 3.20 (0.76) 3.36 (0.78) <0.001
## Invalid variables only
contTable <- CreateContTable(vars = c("wrong_var1","wrong_var2"), strata = strata, data = dataFrame)
## Warning: The data frame does not have wrong_var1 wrong_var2 Dropped
## Error: No valid variables.
## Duplication
contTable <- CreateContTable(vars = c(vars,"time","age"), strata = strata, data = dataFrame)
contTable
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt (mean (sd)) 1.51 (0.50) 1.47 (0.51) 1.48 (0.50) 0.894
## ascites (mean (sd)) 0.01 (0.08) 0.00 (0.00) 0.18 (0.39) <0.001
## spiders (mean (sd)) 0.20 (0.40) 0.26 (0.45) 0.42 (0.49) <0.001
## edema (mean (sd)) 0.04 (0.14) 0.06 (0.17) 0.20 (0.35) <0.001
## stage (mean (sd)) 2.77 (0.88) 3.20 (0.76) 3.36 (0.78) <0.001
## time (mean (sd)) 2333.16 (994.66) 1546.20 (753.07) 1376.93 (1049.23) <0.001
## age (mean (sd)) 49.51 (10.43) 41.69 (6.33) 53.92 (9.81) <0.001
## No stratifying variables
contTable <- CreateContTable(vars = vars, strata = "status3", data = dataFrame)
## Error: None of the stratifying variables are present in the data frame
## Only mean in the object
contTable <- CreateContTable(vars = vars, strata = strata, data = dataFrame, func.names = "mean")
contTable
## Error: The object does not contain all necessary statistics. Use summary() method.
## Very small strata
contTable <- CreateContTable(vars = vars, strata = smallStrata, data = smallDataFrame)
summary(contTable)
## edema: 0
## n miss mean sd median p25 p75 min max skew kurt
## trt 1 0 1 NA 1 1 1 1 1 NaN NaN
## ascites 1 0 0 NA 0 0 0 0 0 NaN NaN
## spiders 1 0 1 NA 1 1 1 1 1 NaN NaN
## edema 1 0 0 NA 0 0 0 0 0 NaN NaN
## stage 1 0 3 NA 3 3 3 3 3 NaN NaN
## ---------------------------------------------------------------------------------------
## edema: 0.5
## n miss mean sd median p25 p75 min max skew kurt
## trt 2 0 1.0 0.00 1.0 1.00 1.00 1.0 1.0 NaN NaN
## ascites 2 0 0.0 0.00 0.0 0.00 0.00 0.0 0.0 NaN NaN
## spiders 2 0 0.5 0.71 0.5 0.25 0.75 0.0 1.0 NaN NaN
## edema 2 0 0.5 0.00 0.5 0.50 0.50 0.5 0.5 NaN NaN
## stage 2 0 4.0 0.00 4.0 4.00 4.00 4.0 4.0 NaN NaN
## ---------------------------------------------------------------------------------------
## edema: 1
## n miss mean sd median p25 p75 min max skew kurt
## trt 3 0 1.67 0.58 2 1.5 2 1 2 -1.7 NaN
## ascites 3 0 1.00 0.00 1 1.0 1 1 1 NaN NaN
## spiders 3 0 0.67 0.58 1 0.5 1 0 1 -1.7 NaN
## edema 3 0 1.00 0.00 1 1.0 1 1 1 NaN NaN
## stage 3 0 4.00 0.00 4 4.0 4 4 4 NaN NaN
##
## p-values
## pNormal pNonNormal
## trt NA 0.28650
## ascites NA 0.08208
## spiders NA 0.73162
## edema NA 0.08208
## stage NA 0.08208
contTable
## Stratified by edema
## 0 0.5 1 p test
## n 1 2 3
## trt (mean (sd)) 1.00 (NA) 1.00 (0.00) 1.67 (0.58) NA
## ascites (mean (sd)) 0.00 (NA) 0.00 (0.00) 1.00 (0.00) NA
## spiders (mean (sd)) 1.00 (NA) 0.50 (0.71) 0.67 (0.58) NA
## edema (mean (sd)) 0.00 (NA) 0.50 (0.00) 1.00 (0.00) NA
## stage (mean (sd)) 3.00 (NA) 4.00 (0.00) 4.00 (0.00) NA
Categorical: Behaviors on wrong data format
### Behaviors on wrong data format
## Not a data frame
catTable <- CreateCatTable(vars = vars, strata = strata, data = "dataFrame")
## Error: The data argument needs to be a data frame (no quote).
## Invalid variables
catTable <- CreateCatTable(vars = c(vars,"wrong_var1","wrong_var2"), strata = strata, data = dataFrame)
## Warning: The data frame does not have wrong_var1 wrong_var2 Dropped
catTable
## Stratified by status
## 0 1 2 p test
## n 232 25 161
## trt = 2 (%) 85 (50.6) 9 (47.4) 60 (48.0) 0.894
## ascites = 1 (%) 1 ( 0.6) 0 ( 0.0) 23 (18.4) <0.001
## spiders = 1 (%) 33 (19.6) 5 (26.3) 52 (41.6) <0.001
## edema (%) <0.001
## 0 216 (93.1) 22 (88.0) 116 (72.0)
## 0.5 15 ( 6.5) 3 (12.0) 26 (16.1)
## 1 1 ( 0.4) 0 ( 0.0) 19 (11.8)
## stage (%) <0.001
## 1 19 ( 8.3) 0 ( 0.0) 2 ( 1.3)
## 2 64 (27.8) 5 (20.0) 23 (14.6)
## 3 97 (42.2) 10 (40.0) 48 (30.6)
## 4 50 (21.7) 10 (40.0) 84 (53.5)
## Invalid variables only
catTable <- CreateCatTable(vars = c("wrong_var1","wrong_var2"), strata = strata, data = dataFrame)
## Warning: The data frame does not have wrong_var1 wrong_var2 Dropped
## Error: No valid variables.
## Duplication
catTable <- CreateCatTable(vars = c(vars,"stage","edema"), strata = strata, data = dataFrame)
## No stratifying variables
catTable <- CreateCatTable(vars = vars, strata = "status3", data = dataFrame)
## Error: None of the stratifying variables are present in the data frame
## Very small strata
catTable <- CreateCatTable(vars = vars, strata = smallStrata, data = smallDataFrame)
summary(catTable)
## edema: 0
## var n miss level freq percent cum.percent
## trt 1 0 1 1 100.0 100.0
## 2 0 0.0 100.0
##
## ascites 1 0 0 1 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 1 0 0 0 0.0 0.0
## 1 1 100.0 100.0
##
## edema 1 0 0 1 100.0 100.0
## 0.5 0 0.0 100.0
## 1 0 0.0 100.0
##
## stage 1 0 3 1 100.0 100.0
## 4 0 0.0 100.0
##
## ---------------------------------------------------------------------------------------
## edema: 0.5
## var n miss level freq percent cum.percent
## trt 2 0 1 2 100.0 100.0
## 2 0 0.0 100.0
##
## ascites 2 0 0 2 100.0 100.0
## 1 0 0.0 100.0
##
## spiders 2 0 0 1 50.0 50.0
## 1 1 50.0 100.0
##
## edema 2 0 0 0 0.0 0.0
## 0.5 2 100.0 100.0
## 1 0 0.0 100.0
##
## stage 2 0 3 0 0.0 0.0
## 4 2 100.0 100.0
##
## ---------------------------------------------------------------------------------------
## edema: 1
## var n miss level freq percent cum.percent
## trt 3 0 1 1 33.3 33.3
## 2 2 66.7 100.0
##
## ascites 3 0 0 0 0.0 0.0
## 1 3 100.0 100.0
##
## spiders 3 0 0 1 33.3 33.3
## 1 2 66.7 100.0
##
## edema 3 0 0 0 0.0 0.0
## 0.5 0 0.0 0.0
## 1 3 100.0 100.0
##
## stage 3 0 3 0 0.0 0.0
## 4 3 100.0 100.0
##
##
## p-values
## pApprox pExact
## trt 0.22313 0.60000
## ascites 0.04979 0.10000
## spiders 0.68729 1.00000
## edema 0.01735 0.01667
## stage 0.04979 0.16667
catTable
## Stratified by edema
## 0 0.5 1 p test
## n 1 2 3
## trt = 2 (%) 0 ( 0.0) 0 ( 0.0) 2 ( 66.7) 0.223
## ascites = 1 (%) 0 ( 0.0) 0 ( 0.0) 3 (100.0) 0.050
## spiders = 1 (%) 1 (100.0) 1 ( 50.0) 2 ( 66.7) 0.687
## edema (%) 0.017
## 0 1 (100.0) 0 ( 0.0) 0 ( 0.0)
## 0.5 0 ( 0.0) 2 (100.0) 0 ( 0.0)
## 1 0 ( 0.0) 0 ( 0.0) 3 (100.0)
## stage = 4 (%) 0 ( 0.0) 2 (100.0) 3 (100.0) 0.050
Check environment
## List objects
ls()
## [1] "catTable" "contTable" "dataFrame" "exactlVars" "matObj" "nonNormalVars"
## [7] "pbc" "pbcseq" "showMessage" "showWarning" "smallDataFrame" "smallStrata"
## [13] "strata" "strataThreeVars" "strataTwoVars" "vars"
## Exported objects
getNamespaceExports("tableone")
## [1] "CreateCatTable" "CreateContTable" "CreateTableOne"
## [4] "ModuleConvertNonNormal" "ModuleConvertNormal" "ModuleCreateStrataVarName"
## [7] "ModuleCreateTableForOneVar" "ModuleQuoteAndPrintMat" "ModuleReturnFalseIfNoStrata"
## [10] "ModuleReturnStrata" "ModuleReturnVarsExist" "ModuleStopIfNotDataFrame"
## [13] "ModuleStopIfNoVarsLeft" "ModuleTestSafe" "print.CatTable"
## [16] "print.ContTable" "print.TableOne" "sasKurtosis"
## [19] "sasSkewness" "ShowRegTable" "summary.CatTable"
## [22] "summary.ContTable" "summary.TableOne" "tryCatch.W.E"
## List packages
sessionInfo()
## R version 3.0.2 (2013-09-25)
## Platform: x86_64-apple-darwin10.8.0 (64-bit)
##
## locale:
## [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
##
## attached base packages:
## [1] splines stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] tableone_0.2.1 survival_2.37-7 gmodels_2.15.4.1 e1071_1.6-2 class_7.3-9 testthat_0.7.1
## [7] devtools_1.4.1 knitr_1.5 R.utils_1.29.8 R.oo_1.17.0 R.methodsS3_1.6.1
##
## loaded via a namespace (and not attached):
## [1] digest_0.6.4 evaluate_0.5.1 formatR_0.10 gdata_2.13.2 gtools_3.3.0 httr_0.2 MASS_7.3-29
## [8] memoise_0.1 parallel_3.0.2 RCurl_1.95-4.1 stringr_0.6.2 tools_3.0.2 whisker_0.3-2