GEM: GEM: fast association study for the interplay of Gene, Environment and Methylation

Tools for analyzing EWAS, methQTL and GxE genome widely.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("GEM")
AuthorHong Pan, Joanna D Holbrook, Neerja Karnani, Chee-Keong Kwoh
Bioconductor views DNAMethylation GUI GeneExpression GenomeWideAssociation MethylSeq MethylationArray Regression SNP
Date of publicationNone
MaintainerHong Pan <pan_hong@sics.a-star.edu.sg>
LicenseArtistic-2.0
Version1.0.0

View on Bioconductor

Functions

as.matrix,SlicedData-method Man page
colMeans,SlicedData-method Man page
colnames<-,SlicedData-method Man page
colnames,SlicedData-method Man page
colSums,SlicedData-method Man page
dim,SlicedData-method Man page
GEM_Emodel Man page
GEM_Gmodel Man page
GEM_GUI Man page
GEM_GWASmodel Man page
GEM_GxEmodel Man page
GEM-package Man page
length,SlicedData-method Man page
ncol,SlicedData-method Man page
NCOL,SlicedData-method Man page
nrow,SlicedData-method Man page
NROW,SlicedData-method Man page
rowMeans,SlicedData-method Man page
rownames<-,SlicedData-method Man page
rownames,SlicedData-method Man page
rowSums,SlicedData-method Man page
show,SlicedData-method Man page
SlicedData Man page
SlicedData-class Man page
[[<-,SlicedData-method Man page
[[,SlicedData-method Man page
summary.SlicedData Man page

Files

DESCRIPTION
NAMESPACE
R
R/GEM_GUI.R R/GEM_model.R R/Matrix_eQTL_engine2.R
README.md
build
build/vignette.rds
inst
inst/CITATION
inst/NEWS.Rd
inst/doc
inst/doc/user_guide.R
inst/doc/user_guide.Rmd
inst/doc/user_guide.html
inst/extdata
inst/extdata/cov.txt
inst/extdata/env.txt
inst/extdata/gxe.txt
inst/extdata/methylation.txt
inst/extdata/snp.txt
inst/unitTests
inst/unitTests/test_GEM.R
man
man/GEM-package.Rd man/GEM_Emodel.Rd man/GEM_GUI.Rd man/GEM_GWASmodel.Rd man/GEM_Gmodel.Rd man/GEM_GxEmodel.Rd man/SlicedData-class.Rd
tests
tests/runTests.R
vignettes
vignettes/GUI_1.png
vignettes/GUI_2.png
vignettes/user_guide.Rmd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.