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CGEN (version 3.8.0)

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

Description

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

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Version

Version

3.8.0

License

GPL-2 + file LICENSE

Maintainer

Bill Wheeler

Last Published

February 15th, 2017

Functions in CGEN (3.8.0)

getMatchedSets

Case-Control and Nearest-Neighbor Matching
Manhattan.plot

Manhattan plot
QQ.plot

QQ plot
LocusMapData

Locus map data
getSummary

Compute summary information
snp.score

Score Test
pheno.list

List to describe the covariate and outcome data
getWaldTest

Compute a Wald test
subject.list

List to describe the file of subject ids
printEffects

Print an effects table
locusMap.list

List to describe the locus map data
snp.logistic

Logistic regression analysis for a single SNP
CGEN

An R package for analysis of case-control studies in genetic epidemiology
snp.effects.plot

Effects plot
additive.test

A test for gene-environment interaction under an additive risk model for case-control data
GxE.scan

GxE analysis for an array of SNPs
snp.matched

Robust G-G and G-E Interaction with Finely-Matched Case-Control Data.
snp.effects

Joint and Stratified Effects
GxE.scan.combine

Combines output files into one file
GxE.scan.partition

Creates GxE.scan job files for a computing cluster
Xdata

Sample covariate and outcome data
snp.list

List to describe the genotype data