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kaz-yos / tableone

R package to create "Table 1", description of baseline characteristics with or without propensity score weighting
https://cran.r-project.org/web/packages/tableone/index.html
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Categorical variables omitted from output #7

Closed manisahni closed 9 years ago

manisahni commented 9 years ago

I cant seem to get the categorical variables into the CreateTableone output: any help will be appreciated. You can see below that the dataset contains categorical as well as continuous variables.

https://www.dropbox.com/s/qbw9viacsx774q4/temp3.csv?dl=0 ## link to the dataset https://www.dropbox.com/s/hi3sh82noslktpd/table%20one%20example.Rmd?dl=0

link to the rmd file containing code

setwd("~/Dropbox/tableone example") ## set wd temp3 <- read.csv("~/Dropbox/tableone example/temp3.csv") head(temp3)

Here is the code for making table One.

library(tableone)

factorVars <-c("tachy", "fever", "hypotherm", "luekocytosis", "leukopenia", "tachypnea", "sot", "immunosuppresive", "unequivocal_pos", "neutropenic")

set factor variables

vars<- c("max_wbc", "procal_corr", "max_lact", "max_temp", "max_rr", "max_hr", "min_temp", "max_anc", "min_sbp","sirs_score")

set continous variables

tableOne <- CreateTableOne(vars = vars, strata = "unequivocal_pos", data = temp3, factorVars = (factorVars)) #

tableOne

kaz-yos commented 9 years ago

The variables you specify in the factorVars have to be also in vars, too. The code below should work. This questions has been asked several times in the past. Maybe I should reconsider this interface.

tableOne <- CreateTableOne(vars = c(vars, factorVars), strata = "unequivocal_pos", data = temp3, factorVars = factorVars)
manisahni commented 9 years ago

Thanks much Kazuki. Very cool.