An R package for analysis of case-control studies in genetic epidemiology

Documentation for package ‘CGEN’ version 3.23.0

additive.test	A test for gene-environment interaction under an additive risk model for case-control data
CGEN	An R package for analysis of case-control studies in genetic epidemiology
getMatchedSets	Case-Control and Nearest-Neighbor Matching
getSummary	Compute summary information
getWaldTest	Compute a Wald test
GxE.scan	GxE analysis for an array of SNPs
GxE.scan.combine	Combines output files into one file
GxE.scan.partition	Creates GxE.scan job files for a computing cluster
locusMap.list	List to describe the locus map data
LocusMapData	Locus map data
Manhattan.plot	Manhattan plot
pheno.list	List to describe the covariate and outcome data
printEffects	Print an effects table
QQ.plot	QQ plot
snp.effects	Joint and Stratified Effects
snp.effects.plot	Effects plot
snp.list	List to describe the genotype data
snp.logistic	Logistic regression analysis for a single SNP
snp.matched	Robust G-G and G-E Interaction with Finely-Matched Case-Control Data.
snp.score	Score Test
subject.list	List to describe the file of subject ids
Xdata	Sample covariate and outcome data