Commit d01e7342 authored by mabrook's avatar mabrook
Browse files

updates to readme

parent 9008909b
Pipeline #3320 passed with stage
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...@@ -10,19 +10,19 @@ The AIDS Clinical Trials Group (ACTG) 320 compared a combination of three antire ...@@ -10,19 +10,19 @@ The AIDS Clinical Trials Group (ACTG) 320 compared a combination of three antire
### Installation ### Installation
You can install the package from Bitbucket You can install the package from oue public Gitlab site with the following commands:
```{r setup, include=FALSE, warning=FALSE} ```{r setup, include=FALSE, warning=FALSE}
knitr::opts_chunk$set(echo = TRUE) knitr::opts_chunk$set(echo = TRUE)
library("devtools") library("devtools")
devtools::install_bitbucket("novisci/actg") devtools::install_git("https://gitlab.novisci.com/nsPublicData/actg.git")
library(actg) library(actg)
library(knitr) library(knitr)
``` ```
```{r, eval=FALSE} ```{r, eval=FALSE}
library("devtools") library("devtools")
devtools::install_bitbucket("novisci/actg") devtools::install_git("https://gitlab.novisci.com/nsPublicData/actg.git")
library(actg) library(actg)
``` ```
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...@@ -19,26 +19,81 @@ Covariates measured at baseline and available in the dataset are age, ...@@ -19,26 +19,81 @@ Covariates measured at baseline and available in the dataset are age,
sex, race, ethnicity, Karnofsky score, CD4 cell count, and history of sex, race, ethnicity, Karnofsky score, CD4 cell count, and history of
injection drug use. injection drug use.
### Installation
You can install the package from oue public Gitlab site with the
following commands:
library("devtools")
devtools::install_git("https://gitlab.novisci.com/nsPublicData/actg.git")
library(actg)
### List of Variables (variable name: definition) ### List of Variables (variable name: definition)
- id: patient identifier - id: patient identifier
- sex: Male, Female - sex: Male, Female
- race: White, Black, Hispanic - race: White, Black, Hispanic
- idu: 1=history of injection drug use, 0 = no history of injection drug - idu: 1=history of injection drug use, 0=no history of injection drug
use use
- art: factor variable for treatment group (1 = triple therapy, - art: 1=triple therapy, 0=dual therapy
0 = dual therapy) - art\_f: factor variable for treatment group (1=triple therapy,
0=dual therapy)
- r: 1=in subcohort, 0=not - r: 1=in subcohort, 0=not
- age: years of age at randomization - age: years of age at randomization
- karnofsky_score: Karnofsky score (100 = normal, 0 = dead) - karnof: Karnofsky score (100=normal, 0=dead)
- karnofsky: dichotomized Karnofsky score (< 90, >= 90)
- days: days from randomization to endpoint of censoring - days: days from randomization to endpoint of censoring
- cd4: CD4 count in cells/mm^3 at randomization - cd4: CD4 count in cells/mm^3 at randomization
- stop: day therapy stopped, missing if not stopped - stop: day therapy stopped, missing if not stopped
- y: time of event (AIDS or death) - Y: time of event (AIDS or death)
- drop_out: time of censoring due to drop-out - C1: time of censoring due to drop-out
- censor: time of censoring not due to drop-out - C2: time of censoring not due to drop-out
<!-- -->
actg[1:20,]
## id idu art r age karnofsky_score days cd4 stop y
## 1 10333 No Dual therapy 1 40 90 132 95 29 NA
## 2 10350 No Triple therapy 0 51 90 139 185 NA NA
## 3 10491 Yes Dual therapy 1 63 90 363 180 NA NA
## 4 10719 No Dual therapy 1 31 100 113 52 78 113
## 5 11158 No Dual therapy 1 40 90 229 189 NA NA
## 6 11656 No Triple therapy 0 49 90 350 120 NA NA
## 7 11760 Yes Triple therapy 0 43 80 340 60 NA NA
## 8 11767 No Triple therapy 0 43 90 356 85 NA NA
## 9 11796 No Triple therapy 1 45 80 308 10 50 NA
## 10 11806 No Dual therapy 1 49 80 355 40 196 NA
## 11 11851 No Dual therapy 1 39 100 306 20 186 NA
## 12 11884 No Dual therapy 1 46 90 343 12 167 NA
## 13 11898 No Triple therapy 0 31 100 278 151 NA NA
## 14 11899 No Dual therapy 1 26 100 332 75 159 NA
## 15 11900 Yes Dual therapy 1 34 100 336 97 170 NA
## 16 11901 No Dual therapy 1 43 90 332 31 NA NA
## 17 11902 No Dual therapy 1 34 90 334 52 NA NA
## 18 11904 No Triple therapy 1 38 90 280 3 NA NA
## 19 11905 No Dual therapy 1 32 100 280 113 NA NA
## 20 11921 No Dual therapy 1 41 80 271 15 NA NA
## drop_out censor race karnofsky sex
## 1 132 NA White Score >= 90 Male
## 2 NA 139 White Score >= 90 Male
## 3 NA 363 White Score >= 90 Male
## 4 NA NA White Score >= 90 Male
## 5 NA 229 Hispanic Score >= 90 Female
## 6 NA 350 White Score >= 90 Male
## 7 NA 340 White Score < 90 Male
## 8 NA 356 Black Score >= 90 Male
## 9 308 NA White Score < 90 Male
## 10 NA 355 White Score < 90 Female
## 11 NA 306 Black Score >= 90 Male
## 12 NA 343 White Score >= 90 Male
## 13 NA 278 Black Score >= 90 Male
## 14 NA 332 White Score >= 90 Male
## 15 NA 336 White Score >= 90 Male
## 16 NA 332 Black Score >= 90 Male
## 17 NA 334 White Score >= 90 Male
## 18 NA 280 White Score >= 90 Male
## 19 NA 280 Black Score >= 90 Male
## 20 NA 271 White Score < 90 Male
### Notes ### Notes
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