InGRiD: Integrative Genomics Robust iDentification of cancer subgroups

InGRiD is a statistical approach to improve prediction of cancer subgroups and identification of key genes and pathways by integrating information from biological pathway databases.

Installation

To install the development version of the INGRID package, it’s easiest to use the ‘devtools’ package.

#install.packages("devtools")
library(devtools)
install_github("dongjunchung/INGRID")

Usage

The R package vignette will provide a good start point for the genetic analysis using the INGRID package, including the overview of INGRID package and the example command lines:

library(INGRID)
vignette("INGRID-example")

The following two help pages will also provide quick references for INGRID package and the example command lines:

package?INGRID
class?INGRID

References

Wei W, Sun Z, da Silveira WA, Yu Z, Lawson A, Hardiman G, Kelemen LE, and Chung D (2018), “Semi-supervised Identification of Cancer Subgroups using Survival Outcomes and Overlapping Grouping Information,” Statistical Methods in Medical Research (OnlineFirst).