GEM: GEM: fast association study for the interplay of Gene, Environment and Methylation
Version 1.2.0

Tools for analyzing EWAS, methQTL and GxE genome widely.

Browse man pages Browse package API and functions Browse package files

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
Version1.2.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("GEM")

Man pages

GEM_Emodel: GEM_Emodel Analysis
GEM_Gmodel: GEM_Gmodel Analysis
GEM_GUI: Graphical User Interface (GUI) for GEM
GEM_GWASmodel: GEM_GWASmodel
GEM_GxEmodel: GEM_GxEmodel
GEM-package: GEM: Fast association study for the interplay of Gene,...
SlicedData-class: Class 'SlicedData' for storing large matrices

Functions

GEM-package Man page
GEM_Emodel Man page Source code
GEM_GUI Man page Source code
GEM_GWASmodel Man page Source code
GEM_Gmodel Man page Source code
GEM_GxEmodel Man page Source code
Matrix_eQTL_engine2 Source code
NCOL,SlicedData-method Man page
NROW,SlicedData-method Man page
SNP_process_split_for_ANOVA Source code
SetNanRowMean Source code
SlicedData Man page
SlicedData-class Man page Man page
[[,SlicedData-method Man page
[[<-,SlicedData-method Man page
as.matrix,SlicedData-method Man page
colMeans,SlicedData-method Man page
colSums,SlicedData-method Man page
colnames,SlicedData-method Man page
colnames<-,SlicedData-method Man page
dim,SlicedData-method Man page
histme Source code
length,SlicedData-method Man page
modelPara_GUI Source code
modelSelection_GUI Source code
my.pmax Source code
my.pmin Source code
ncol,SlicedData-method Man page
nrow,SlicedData-method Man page
plot.MatrixEQTL Source code
pv.nz Source code
qqme Source code
rowMeans,SlicedData-method Man page
rowSums,SlicedData-method Man page
rownames,SlicedData-method Man page
rownames<-,SlicedData-method Man page
seq Source code
show,SlicedData-method Man page
summary.SlicedData Man page Source code

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
GEM documentation built on May 20, 2017, 9:13 p.m.