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


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Documentation for package ‘CGEN’ version 1.2.0

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CGEN An R package for analysis of case-control studies in genetic
chromosome.plot Chromosome plot
getMatchedSets Case-Control and Nearest-Neighbor Matching
getSummary Compute summary information
getWaldTest Compute a Wald test
locusMap.list List to describe the locus map data
LocusMapData Locus map data
pheno.list List to describe the covariate and outcome data
printEffects Print an effects table
QQ.plot QQ plot
recode.geno Recode a vector of genotypes
sas.list List for SAS data sets
snp.effects Joint and Stratified Effects
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.scan.logistic Logistic regression analysis for an array of SNPs
SNPdata Sample genotype data
Xdata Sample covariate and outcome data