A collection of functions commonly used in the work of the
biostatisticians. The goal of gtsummary is to make reporting of
tabular analytic results simple, beautiful, and reproducible.
Installation
You can install the production version of gtsummary with:
install.packages("remotes")
remotes::install_url("https://github.com/ddsjoberg/clintable/archive/master.zip")and the development version with:
install.packages("remotes")
remotes::install_url("https://github.com/ddsjoberg/clintable/archive/dev.zip")Examples
The vignettes/tutorials for the primary gtsummary functions have detailed examples and can be found at danieldsjoberg.com/clintable. Each vignette is an Rmarkdown file (*.Rmd) and a copy of the files can be found here: https://github.com/ddsjoberg/clintable/tree/master/vignettes.
Table 1
library(gtsummary)
fmt_table1(trial, by = "trt") %>%
add_comparison() %>%
bold_labels()| Variable | Drug | Placebo | p-value |
|---|---|---|---|
| N = 107 | N = 93 | ||
| Age, yrs | 47 (39, 58) | 46 (36, 54) | 0.3 |
| Unknown | 3 | 5 | |
| Marker Level, ng/mL | 0.61 (0.22, 1.20) | 0.72 (0.22, 1.63) | 0.4 |
| Unknown | 4 | 4 | |
| T Stage | 0.13 | ||
| T1 | 25 (23%) | 26 (28%) | |
| T2 | 26 (24%) | 23 (25%) | |
| T3 | 29 (27%) | 13 (14%) | |
| T4 | 27 (25%) | 31 (33%) | |
| Grade | 0.3 | ||
| I | 38 (36%) | 29 (31%) | |
| II | 34 (32%) | 24 (26%) | |
| III | 35 (33%) | 40 (43%) | |
| Tumor Response | 52 (51%) | 30 (33%) | 0.017 |
| Unknown | 6 | 3 |
Regression Models
mod1 = glm(am ~ mpg + factor(cyl), mtcars, family = binomial(link = "logit"))
fmt_regression(
mod1, exponentiate = TRUE,
label = list(`factor(cyl)` = "No. of Cylinders", mpg = "Miles per Gallon")
)| N = 32 | OR | 95% CI | p-value |
|---|---|---|---|
| Miles per Gallon | 1.45 | 1.03, 2.40 | 0.080 |
| No. of Cylinders | |||
| 4 | Ref. | ||
| 6 | 2.08 | 0.13, 39.0 | 0.6 |
| 8 | 2.02 | 0.04, 119 | 0.7 |