Introduction

This is an ongoing report of case series describing COVID+ patients at a single center.

Select the code button in this section to see the R code for dataset construction.

Cohort Selection

#bring in covid
load("./Data/covid_master.RData")
#bring in covid1, cleaned set
load("./Data/covid_cleaned.RData")

mytables <- tableby.control(test=T, total = T,
                            digits = 0,
                            digits.pct = 0)

As of 2021-05-11 the total number of observations in dataset = 4402

  • Exclusions:
    • No valid test result (N = 2)
    • No valid test date (N = 145)
    • Ambulatory encounter (N = 74)
    • Test result not positive for SARS-CoV2 (N = 3950)

Final cohort for COVID+ analysis N = 4180

Tables by Location

Demographics

summary(tableby(patient_location ~
                  sex   +
                  age + 
                  race_adj  +
                  ethnic    +
                  bmi   +
                  bmi_cat +
                  covid_contact +
                  home,
                data = covid1,
                control = mytables
))
ECC/Hospital (N=371) Outpatient (N=3809) Total (N=4180) p value
Sex 0.450
   N-Miss 0 2158 2158
   Female 165 (44%) 770 (47%) 935 (46%)
   Male 206 (56%) 881 (53%) 1087 (54%)
Age, years < 0.001
   N-Miss 0 2147 2147
   Mean (SD) 58 (18) 53 (18) 54 (18)
   Range 17 - 101 0 - 113 0 - 113
Race < 0.001
   N-Miss 1 3805 3806
   Black 296 (80%) 2 (50%) 298 (80%)
   Other 4 (1%) 1 (25%) 5 (1%)
   Unknown 9 (2%) 1 (25%) 10 (3%)
   White 61 (16%) 0 (0%) 61 (16%)
Ethnicity 0.403
   N-Miss 6 3805 3811
   Hispanic 42 (12%) 1 (25%) 43 (12%)
   Non-Hispanic 323 (88%) 3 (75%) 326 (88%)
BMI,kg/m2 0.606
   N-Miss 12 3806 3818
   Mean (SD) 29 (15) 34 (9) 29 (15)
   Range 0 - 239 26 - 43 0 - 239
BMI,kg/m2 categories 0.621
   N-Miss 12 3806 3818
   <18.5 27 (8%) 0 (0%) 27 (7%)
   18.5-24.9 99 (28%) 0 (0%) 99 (27%)
   25-29.9 99 (28%) 1 (33%) 100 (28%)
   30+ 134 (37%) 2 (67%) 136 (38%)
Contact with suspected/confirmed COVID-19 case 0.805
   N-Miss 1 3805 3806
   No 254 (69%) 3 (75%) 257 (69%)
   Yes 80 (22%) 1 (25%) 81 (22%)
   Unknown 36 (10%) 0 (0%) 36 (10%)
Housing type 0.780
   N-Miss 1 3805 3806
   Correctional facility 14 (4%) 0 (0%) 14 (4%)
   Homeless/shelter 17 (5%) 0 (0%) 17 (5%)
   Long term health facility 9 (2%) 0 (0%) 9 (2%)
   Nursing home 100 (27%) 0 (0%) 100 (27%)
   Stable Home 228 (62%) 4 (100%) 232 (62%)
   Unknown 2 (1%) 0 (0%) 2 (1%)