Gene Set Analysis of (Rare) Copy Number Variants

Documentation for package ‘cnvGSA’ version 1.0.0

cnvGSA-package	Gene-Set Analysis of (Rare) Copy Number Variants
burdenGs	Class '"CnvGSAOutput"'
burdenGs-method	Class '"CnvGSAOutput"'
burdenSample	Class '"CnvGSAOutput"'
burdenSample-method	Class '"CnvGSAOutput"'
cnvData	Class '"CnvGSAInput"'
cnvData-method	Class '"CnvGSAInput"'
cnvData-method	Class '"CnvGSAOutput"'
cnvData<-	Class '"CnvGSAInput"'
cnvData<--method	Class '"CnvGSAInput"'
cnvGSA	Gene-Set Analysis of (Rare) Copy Number Variants
cnvGSAexportBurdenStats	Export burden statistics
cnvGSAFisher	CNV/gene-set association using Fisher Exact Test
CnvGSAInput	Class '"CnvGSAInput"'
CnvGSAInput-class	Class '"CnvGSAInput"'
CnvGSAOutput	Class '"CnvGSAOutput"'
CnvGSAOutput-class	Class '"CnvGSAOutput"'
enrRes	Class '"CnvGSAOutput"'
enrRes-method	Class '"CnvGSAOutput"'
geneData	Class '"CnvGSAInput"'
geneData-method	Class '"CnvGSAInput"'
geneData-method	Class '"CnvGSAOutput"'
geneData<-	Class '"CnvGSAInput"'
geneData<--method	Class '"CnvGSAInput"'
getCnvGenes	Determine genes hit by CNVs
gsData	Class '"CnvGSAInput"'
gsData-method	Class '"CnvGSAInput"'
gsData<-	Class '"CnvGSAInput"'
gsData<--method	Class '"CnvGSAInput"'
params	Class '"CnvGSAInput"'
params-method	Class '"CnvGSAInput"'
params<-	Class '"CnvGSAInput"'
params<--method	Class '"CnvGSAInput"'
readGMT	Read gene-sets from a .gmt file
readGVF	Read CNVs from a .gvf file
readParamsRFile	Read cnvGSA parameters from a file (R format)
summary-method	cnvGSA methods for function 'summary'
summary-methods	cnvGSA methods for function 'summary'