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Add sepsis dataset

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prise6 2015-06-11 21:30:03 +02:00
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commit cdf25aed08
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1
DESCRIPTION
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@ -19,6 +19,7 @@ Depends:
methods
Collate:
'VirtualTwins.R'
'data.R'
'object.R'
'difft.R'
'setClass.R'

38
R/data.R Normal file
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@ -0,0 +1,38 @@
#' Clinical Trial for Sepsis desease
#'
#' Simulated clinical trial with two groups treatment about sepsis desease. See details.
#'
#' This dataset is taken from
#' \link[=http://biopharmnet.com/wiki/Software_for_subgroup_identification_and_analysis]{SIDES
#' method}.
#'
#' \code{Sepsis} contains simulated data on 470 subjects with a binary outcome
#' survival, that stores survival status for patient after 28 days of treatment,
#' value of 1 for subjects who died after 28 days and 0 otherwise. There are 11
#' covariates, listed below, all of which are numerical variables.
#'
#' Note that contrary to the original dataset used in SIDES, missing values have
#' been imputed by random forest \code{(randomForest::rfImpute())}
#'
#' True subgroup is \emph{PRAPACHE <= 26 & AGE <= 49.80}
#'
#' @format 470 patients and 13 variables.
#' \describe{
#' \item{survival}{binary outcome}
#' \item{THERAPY}{1 for active treatment, 0 for control treatment}
#' \item{TIMFIRST}{Time from first sepsis-organ fail to start drug}
#' \item{AGE}{Patient age in years}
#' \item{BLLPLAT}{Baseline local platelets}
#' \item{blSOFA}{Sum of baselin sofa (cardiovascular, hematology, hepaticrenal, and respiration scores)}
#' \item{BLLCREAT}{Base creatinine}
#' \item{ORGANNUM}{Number of baseline organ failures}
#' \item{PRAPACHE}{Pre-infusion apache-ii score}
#' \item{BLGCS}{Base GLASGOW coma scale score}
#' \item{BLIL6}{Baseline serum IL-6 concentration}
#' \item{BLADL}{Baseline activity of daily living score}
#' \item{BLLBILI}{Baseline local bilirubin}
#' }
#'
#' @source \url{http://biopharmnet.com/wiki/Software_for_subgroup_identification_and_analysis}
#' @name sepsis
NULL

0
data/sepsis.RData → data/sepsis.rdata
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3
man/VirtualTwins.Rd
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@ -13,9 +13,6 @@ VirtualTwins is written mainly with reference classes. Briefly, there is three k
\item \code{\link{VT.tree}} class to find subgroups from \code{\link{difft}} by CART trees. \code{\link{VT.tree.class}} and \code{\link{VT.tree.reg}} extend it.
}
}
\details{
\encoding{UTF-8}
}
\section{TODO LIST}{
\emph{last update : 11.06.2015}

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man/sepsis.Rd Normal file
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@ -0,0 +1,43 @@
% Generated by roxygen2 (4.1.1): do not edit by hand
% Please edit documentation in R/data.R
\name{sepsis}
\alias{sepsis}
\title{Clinical Trial for Sepsis desease}
\format{470 patients and 13 variables.
\describe{
\item{survival}{binary outcome}
\item{THERAPY}{1 for active treatment, 0 for control treatment}
\item{TIMFIRST}{Time from first sepsis-organ fail to start drug}
\item{AGE}{Patient age in years}
\item{BLLPLAT}{Baseline local platelets}
\item{blSOFA}{Sum of baselin sofa (cardiovascular, hematology, hepaticrenal, and respiration scores)}
\item{BLLCREAT}{Base creatinine}
\item{ORGANNUM}{Number of baseline organ failures}
\item{PRAPACHE}{Pre-infusion apache-ii score}
\item{BLGCS}{Base GLASGOW coma scale score}
\item{BLIL6}{Baseline serum IL-6 concentration}
\item{BLADL}{Baseline activity of daily living score}
\item{BLLBILI}{Baseline local bilirubin}
}}
\source{
\url{http://biopharmnet.com/wiki/Software_for_subgroup_identification_and_analysis}
}
\description{
Simulated clinical trial with two groups treatment about sepsis desease. See details.
}
\details{
This dataset is taken from
\link[=http://biopharmnet.com/wiki/Software_for_subgroup_identification_and_analysis]{SIDES
method}.
\code{Sepsis} contains simulated data on 470 subjects with a binary outcome
survival, that stores survival status for patient after 28 days of treatment,
value of 1 for subjects who died after 28 days and 0 otherwise. There are 11
covariates, listed below, all of which are numerical variables.
Note that contrary to the original dataset used in SIDES, missing values have
been imputed by random forest \code{(randomForest::rfImpute())}
True subgroup is \emph{PRAPACHE <= 26 & AGE <= 49.80}
}