To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("oppar")

In most cases, you don't need to download the package archive at all.

oppar

DOI: 10.18129/B9.bioc.oppar    

This is the development version of oppar; for the stable release version, see oppar.

Outlier profile and pathway analysis in R

Bioconductor version: Development (3.6)

The R implementation of mCOPA package published by Wang et al. (2012). Oppar provides methods for Cancer Outlier profile Analysis. Although initially developed to detect outlier genes in cancer studies, methods presented in oppar can be used for outlier profile analysis in general. In addition, tools are provided for gene set enrichment and pathway analysis.

Author: Chenwei Wang [aut], Alperen Taciroglu [aut], Stefan R Maetschke [aut], Colleen C Nelson [aut], Mark Ragan [aut], Melissa Davis [aut], Soroor Hediyeh zadeh [cre], Momeneh Foroutan [ctr]

Maintainer: Soroor Hediyeh zadeh <hediyehzadeh.s at wehi.edu.au>

Citation (from within R, enter citation("oppar")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("oppar")

Documentation

HTML R Script OPPAR: Outlier Profile and Pathway Analysis in R
PDF   Reference Manual
Text   NEWS

Details

biocViews GeneExpression, GeneSetEnrichment, Pathways, Software, SystemsBiology
Version 1.5.0
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License GPL-2
Depends R (>= 3.3)
Imports Biobase, methods, GSEABase, GSVA
LinkingTo
Suggests knitr, rmarkdown, limma, org.Hs.eg.db, GO.db, snow, parallel
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package oppar_1.5.0.tar.gz
Windows Binary oppar_1.5.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) oppar_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/oppar
Package Short Url http://bioconductor.org/packages/oppar/
Package Downloads Report Download Stats

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