coGPS: cancer outlier Gene Profile Sets
Version 1.20.0

Gene Set Enrichment Analysis of P-value based statistics for outlier gene detection in dataset merged from multiple studies

AuthorYingying Wei, Michael Ochs
Bioconductor views DifferentialExpression Microarray
Date of publicationNone
MaintainerYingying Wei <ywei@jhsph.edu>
LicenseGPL-2
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("coGPS")

Getting started

Package overview

Popular man pages

coGPS-internal: coGPS package internal function.
coGPS-package: Cancer Outlier Gene Profile Sets
PatientSpecificGeneList: Patient Specific outlier gene list
PCOPA: P-value based outlier gene detection
permCOPA: Calculate PCOPA value for permuations
PlotTopPCOPA: Plot expression patterns of top ranked genes.
SampleData: Sample Data for coGPS
See all...

All man pages Function index File listing

Man pages

coGPS-internal: coGPS package internal function.
coGPS-package: Cancer Outlier Gene Profile Sets
PatientSpecificGeneList: Patient Specific outlier gene list
PCOPA: P-value based outlier gene detection
permCOPA: Calculate PCOPA value for permuations
PlotTopPCOPA: Plot expression patterns of top ranked genes.
SampleData: Sample Data for coGPS

Functions

CNV_classlab_matched Man page
CNV_exprs_matched Man page
Exon_classlab_matched Man page
Exon_exprs_matched Man page
Hs.gmtl.c1 Man page
Methy_classlab_matched Man page
Methy_exprs_matched Man page
PCOPA Man page Source code
PatientSpecificGeneList Man page Source code
PlotTopPCOPA Man page Source code
coGPS Man page
coGPS-package Man page
permCOPA Man page Source code
plotCOPA Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/coGPS.R
build
build/vignette.rds
data
data/CNV_classlab_matched.txt.gz
data/CNV_exprs_matched.txt.gz
data/Exon_classlab_matched.txt.gz
data/Exon_exprs_matched.txt.gz
data/Methy_classlab_matched.txt.gz
data/Methy_exprs_matched.txt.gz
data/datalist
data/human_c1.rdata
inst
inst/CITATION
inst/NEWS
inst/doc
inst/doc/coGPS.R
inst/doc/coGPS.Rnw
inst/doc/coGPS.pdf
man
man/PCOPA.Rd
man/PatientSpecificGeneList.Rd
man/PlotTopPCOPA.Rd
man/SampleData.Rd
man/coGPS-internal.Rd
man/coGPS-package.Rd
man/permCOPA.Rd
vignettes
vignettes/coGPS.Rnw
coGPS documentation built on May 20, 2017, 10:49 p.m.

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