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aVirtualTwins
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Add quick examplre and reorganize presentation

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prise6 2015-07-27 01:41:49 +02:00
parent 94495e5bec
commit 4846c4ee34
1 changed files with 32 additions and 13 deletions
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README.md
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@ -13,15 +13,29 @@ As an intern in a french pharmaceutical group, i worked on this method and devel
data(sepsis)
# Format data
vt.obj <- vt.data(sepsis, "survival", "THERAPY", T)
# $table
# trt
# resp 0 1 sum
# 0 101 188 289
# 1 52 129 181
# sum 153 317 470
# Incidence 0.34 0.407 0.385
#
# $rr
# [1] 1.197059
#
# First step : create random forest model
vt.for <- vt.forest("one", vt.obj, T, ntree = 500)
# Second step : find rules in data
vt.trees <- vt.tree("class", vt.for, threshold = quantile(vt.for$difft, seq(.5,.8,.1)), maxdepth = 2)
vt.trees <- vt.tree("class",
vt.for,
threshold = quantile(vt.for$difft, seq(.5,.8,.1)),
maxdepth = 2)
# Print results
vt.sbgrps <- vt.subgroups(vt.trees)
knitr::kable(vt.sbgrps)
```
| |Subgroup |Subgroup size |Treatement event rate |Control event rate |Treatment sample size |Control sample size | RR (resub)| RR (snd)|
| |Subgroup |Subgroup size |Treatement \n event rate |Control event rate |Treatment sample size |Control sample size | RR (resub)| RR (snd)|
|:-----|:---------------------------|:-------------|:---------------------|:------------------|:---------------------|:-------------------|----------:|--------:|
|tree1 |PRAPACHE>=26.5 |157 |0.752 |0.327 |105 |52 | 2.300| 1.856|
|tree3 |PRAPACHE>=26.5 & AGE>=51.74 |120 |0.897 |0.31 |78 |42 | 2.894| 1.991|
@ -38,11 +52,17 @@ Most of the package use Reference Class programing (in R). Feel free to create y
I got a *WARNING* when Checking package for "cheking PDF version of manual" because of my version of LaTeX. Need to fix it.
## To-do list
* Description and help
* Vignette example
* ...
## Help & Documentation
_Vignette is not finished ..._
See [full-example](http://htmlpreview.github.io/?https://github.com/prise6/aVirtualTwins/blob/dev/inst/doc/full-example.html)
or when installed :
``` r
vignette("full-example", package = "aVirtualTwins")
```
## Install
@ -55,14 +75,13 @@ devtools::install_github("prise6/aVirtualTwins@dev")
library(aVirtualTwins)
```
## Help
* _Vignette is really not finished ..._
## To-do list
* More description
* Finish full-example vignette
* Link to my simulation
* ...
See [full-example](http://htmlpreview.github.io/?https://github.com/prise6/aVirtualTwins/blob/dev/inst/doc/full-example.html)
or when installed :
``` r
vignette("full-example", package = "aVirtualTwins")
```