R Markdown

This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see http://rmarkdown.rstudio.com.

When you click the Knit button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:

subject_name <- c("John Doe", "Jane Doe", "Steve Graves")
temperature <- c(98.1, 98.6, 101.4)
flu_status <- c(FALSE, FALSE, TRUE)

temperature[1]
## [1] 98.1
temperature[2:3]
## [1]  98.6 101.4
temperature[-2]
## [1]  98.1 101.4
gender <- factor(c("MALE", "FEMALE", "MALE"))
gender
## [1] MALE   FEMALE MALE  
## Levels: FEMALE MALE
blood <- factor(c("O", "AB", "A"), levels = c("A", "B", "AB", "O"))
blood
## [1] O  AB A 
## Levels: A B AB O
symptoms <- factor(c("SEVERE", "MILD","MODERATE"), levels = c("MILD", "MODERATE", "SEVERE"), ordered =TRUE)
symptoms
## [1] SEVERE   MILD     MODERATE
## Levels: MILD < MODERATE < SEVERE
bloodsign <- factor(c("+", "-"), levels = c("+", "-"))
bloodsign
## [1] + -
## Levels: + -
symptoms >= "MODERATE"
## [1]  TRUE FALSE  TRUE
pt_data <- data.frame(subject_name, temperature, flu_status, gender, blood, symptoms, stringsAsFactors = FALSE)
pt_data
##   subject_name temperature flu_status gender blood symptoms
## 1     John Doe        98.1      FALSE   MALE     O   SEVERE
## 2     Jane Doe        98.6      FALSE FEMALE    AB     MILD
## 3 Steve Graves       101.4       TRUE   MALE     A MODERATE
pt_data$subject_name
## [1] "John Doe"     "Jane Doe"     "Steve Graves"
pt_data[1,2]
## [1] 98.1
pt_data[,1]
## [1] "John Doe"     "Jane Doe"     "Steve Graves"
pt_data[c(1,3), c("temperature", "gender")]
##   temperature gender
## 1        98.1   MALE
## 3       101.4   MALE
pt_data$temp_c <- (pt_data$temperature - 32)* (5/9)
pt_data$temp_c 
## [1] 36.72222 37.00000 38.55556
pt_data[c("temperature", "temp_c")]
##   temperature   temp_c
## 1        98.1 36.72222
## 2        98.6 37.00000
## 3       101.4 38.55556

Including Plots

You can also embed plots, for example:

Note that the echo = FALSE parameter was added to the code chunk to prevent printing of the R code that generated the plot.