README.md

In bhklab/MetaGx: R package for meta-analysis of breast cancer gene expressions

MetaGx

Scripts to perform meta-analysis of cancer gene expression datasets

Dependencies:

Install the R/Bioconductior dependencies:

pp <- c("Biobase", "BiocGenerics", "org.Hs.eg.db", "survival", "survcomp", "genefu", "mRMRe", "WriteXLS")

source("http://bioconductor.org/biocLite.R")

myrepos <- biocinstallRepos()

rr <- biocLite(pkgs=pp, dependencies=TRUE, type="source", destdir=".")

If using Windows: - WriteXLS needs Perl to be installed. To check if perl has been installed: library(WriteXLS) testPerl(perl="perl", verbose=TRUE)

TODO - Adapt the package to handle curatedOvarianData - Weighted survival does not work properly (number of patients per time points should be "unweighted")

bhklab/MetaGx documentation built on May 12, 2019, 8:25 p.m.