Gene Set Analysis of (Rare) Copy Number Variants

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Documentation for package ‘cnvGSA’ version 1.46.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

cnvGSA-package	Gene-set Analysis of (Rare) Copy Number Variants
cnvData.ls	Class '"CnvGSAInput"'
cnvData.ls-method	Class '"CnvGSAInput"'
cnvData.ls<-	Class '"CnvGSAInput"'
cnvData.ls<--method	Class '"CnvGSAInput"'
cnvGSA	Gene-set Analysis of (Rare) Copy Number Variants
cnvGSAgsTables	Creates the gene-set tables for each gene-set.
cnvGSAIn	Creating the input S4 object needed to run the script.
CnvGSAInput	Class '"CnvGSAInput"'
CnvGSAInput-class	Class '"CnvGSAInput"'
cnvGSAlogRegTest	Performing the logistic regression tests on the CNV data.
CnvGSAOutput	Class '"CnvGSAOutput"'
CnvGSAOutput-class	Class '"CnvGSAOutput"'
config.ls	Class '"CnvGSAInput"'
config.ls-method	Class '"CnvGSAInput"'
config.ls<-	Class '"CnvGSAInput"'
config.ls<--method	Class '"CnvGSAInput"'
f.enrFiles	Prepares the files for the enrichment maps.
f.makeViz	Creates the plots from the CnvGSAOutput data.
f.readConfig	Reading in the config file.
geneID.ls	Class '"CnvGSAInput"'
geneID.ls-method	Class '"CnvGSAInput"'
geneID.ls<-	Class '"CnvGSAInput"'
geneID.ls<--method	Class '"CnvGSAInput"'
gsData.ls	Class '"CnvGSAInput"'
gsData.ls-method	Class '"CnvGSAInput"'
gsData.ls-method	Class '"CnvGSAOutput"'
gsData.ls<-	Class '"CnvGSAInput"'
gsData.ls<--method	Class '"CnvGSAInput"'
gsTables.ls	Class '"CnvGSAOutput"'
gsTables.ls-method	Class '"CnvGSAOutput"'
params.ls	Class '"CnvGSAInput"'
params.ls-method	Class '"CnvGSAInput"'
params.ls<-	Class '"CnvGSAInput"'
params.ls<--method	Class '"CnvGSAInput"'
phData.ls	Class '"CnvGSAInput"'
phData.ls-method	Class '"CnvGSAInput"'
phData.ls-method	Class '"CnvGSAOutput"'
phData.ls<-	Class '"CnvGSAInput"'
phData.ls<--method	Class '"CnvGSAInput"'
res.ls	Class '"CnvGSAOutput"'
res.ls-method	Class '"CnvGSAOutput"'