cnvGSA: Gene Set Analysis of (Rare) Copy Number Variants

This package is intended to facilitate gene-set association with rare CNVs in case-control studies.

Author
Daniele Merico <daniele.merico@gmail.com>, Robert Ziman <rziman@gmail.com>; packaged by Joseph Lugo <joseph.r.lugo@gmail.com>
Date of publication
None
Maintainer
Joseph Lugo <joseph.r.lugo@gmail.com>
License
LGPL
Version
1.18.0

View on Bioconductor

Man pages

cnvGSAgsTables
Creates the gene-set tables for each gene-set.
cnvGSAIn
Creating the input S4 object needed to run the script.
CnvGSAInput-class
Class '"CnvGSAInput"'
cnvGSAlogRegTest
Performing the logistic regression tests on the CNV data.
CnvGSAOutput-class
Class '"CnvGSAOutput"'
cnvGSA-package
Gene-set Analysis of (Rare) Copy Number Variants
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.

Files in this package

cnvGSA/DESCRIPTION
cnvGSA/NAMESPACE
cnvGSA/R
cnvGSA/R/AllClasses.R
cnvGSA/R/cnvGSA.R
cnvGSA/R/cnvGSAviz.R
cnvGSA/R/enrFiles.R
cnvGSA/build
cnvGSA/build/vignette.rds
cnvGSA/external_data_store.txt
cnvGSA/inst
cnvGSA/inst/doc
cnvGSA/inst/doc/cnvGSA-vignette.Rnw
cnvGSA/inst/doc/cnvGSA-vignette.pdf
cnvGSA/inst/doc/cnvGSAUsersGuide.pdf
cnvGSA/inst/extdata
cnvGSA/inst/extdata/configFile.txt
cnvGSA/inst/scripts
cnvGSA/man
cnvGSA/man/CnvGSAInput-class.Rd
cnvGSA/man/CnvGSAOutput-class.Rd
cnvGSA/man/cnvGSA-package.Rd
cnvGSA/man/cnvGSAIn.Rd
cnvGSA/man/cnvGSAgsTables.Rd
cnvGSA/man/cnvGSAlogRegTest.Rd
cnvGSA/man/f.enrFiles.Rd
cnvGSA/man/f.makeViz.Rd
cnvGSA/man/f.readConfig.Rd
cnvGSA/vignettes
cnvGSA/vignettes/cnvGSA-vignette.Rnw