cnvGSA: Gene Set Analysis of (Rare) Copy Number Variants
Version 1.20.0

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

AuthorDaniele Merico <daniele.merico@gmail.com>, Robert Ziman <rziman@gmail.com>; packaged by Joseph Lugo <joseph.r.lugo@gmail.com>
Bioconductor views MultipleComparison
Date of publicationNone
MaintainerJoseph Lugo <joseph.r.lugo@gmail.com>
LicenseLGPL
Version1.20.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("cnvGSA")

Getting started

Package overview

Popular 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.
cnvGSA-package: Gene-set Analysis of (Rare) Copy Number Variants
f.makeViz: Creates the plots from the CnvGSAOutput data.
f.readConfig: Reading in the config file.
See all...

All man pages Function index File listing

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.

Functions

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.R
R/cnvGSA.R
R/cnvGSAviz.R
R/enrFiles.R
build
build/vignette.rds
external_data_store.txt
inst
inst/doc
inst/doc/cnvGSA-vignette.Rnw
inst/doc/cnvGSA-vignette.pdf
inst/doc/cnvGSAUsersGuide.pdf
inst/extdata
inst/extdata/configFile.txt
inst/scripts
man
man/CnvGSAInput-class.Rd
man/CnvGSAOutput-class.Rd
man/cnvGSA-package.Rd
man/cnvGSAIn.Rd
man/cnvGSAgsTables.Rd
man/cnvGSAlogRegTest.Rd
man/f.enrFiles.Rd
man/f.makeViz.Rd
man/f.readConfig.Rd
vignettes
vignettes/cnvGSA-vignette.Rnw
cnvGSA documentation built on May 20, 2017, 10:49 p.m.

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

Please suggest features or report bugs in the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.