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- ReactomePA
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ReactomePA")
In most cases, you don't need to download the package archive at all.
ReactomePA
|
This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, see ReactomePA.
Reactome Pathway Analysis
Bioconductor version: 2.12
This package provides functions for pathway analysis based on REACTOME pathway database. It will implement enrichment analysis, gene set enrichment analysis and functional modules detection.
Author: Guangchuang Yu <guangchuangyu at gmail.com>
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
Citation (from within R,
enter citation("ReactomePA")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("ReactomePA")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ReactomePA")
| R Script | An introduction to ReactomePA | |
| cnetplot.pdf | ||
| rPAclusterProfiler.pdf | ||
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Bioinformatics, Pathways, Software, Visualization |
| Version | 1.4.0 |
| In Bioconductor since | BioC 2.10 (R-2.15) (4 years) |
| License | GPL-2 |
| Depends | R (>= 2.10), DOSE |
| Imports | methods, AnnotationDbi, reactome.db, org.Hs.eg.db, stats4, plyr, igraph, qvalue, graphics |
| LinkingTo | |
| Suggests | clusterProfiler, GOSemSim, org.Hs.eg.db |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | clusterProfiler, DOSE |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | ReactomePA_1.4.0.tar.gz |
| Windows Binary | ReactomePA_1.4.0.zip |
| Mac OS X 10.6 (Snow Leopard) | ReactomePA_1.4.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/ReactomePA/tree/release-2.12 |
| Package Short Url | http://bioconductor.org/packages/ReactomePA/ |
| Package Downloads Report | Download Stats |
Documentation »
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