EGSEA
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see EGSEA.
Ensemble of Gene Set Enrichment Analyses
Bioconductor version: 3.9
This package implements the Ensemble of Gene Set Enrichment Analyses (EGSEA) method for gene set testing.
Author: Monther Alhamdoosh, Luyi Tian, Milica Ng and Matthew Ritchie
Maintainer: Monther Alhamdoosh <m.hamdoosh at gmail.com>
Citation (from within R, enter
citation("EGSEA")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EGSEA")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("EGSEA") Reference Manual
PDF
NEWS
Text
Details
biocViews
Classification, DifferentialExpression, GO, GeneExpression, GeneSetEnrichment, GeneSignaling, GeneTarget, Genetics, GraphAndNetwork, ImmunoOncology, KEGG, Metabolomics, Microarray, MultipleComparison, Network, NetworkEnrichment, OneChannel, Pathways, Proteomics, RNASeq, Sequencing, Software, SystemsBiology, TwoChannel
Version
1.12.0
In Bioconductor since
BioC 3.3 (R-3.3) (8 years)
License
GPL-3
Imports
PADOG(>= 1.6.0), GSVA(>= 1.12.0), globaltest(>= 5.18.0), limma(>= 3.20.9), edgeR(>= 3.6.8), HTMLUtils (>= 0.1.5), hwriter (>= 1.2.2), gplots (>= 2.14.2), ggplot2 (>= 1.0.0), safe(>= 3.4.0), stringi (>= 0.5.0), parallel, stats, metap, grDevices, graphics, utils, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, RColorBrewer, methods, EGSEAdata(>= 1.3.1), Glimma(>= 1.4.0), htmlwidgets, plotly, DT
System Requirements
See More
Suggests
BiocStyle, knitr, testthat
Linking To
Enhances
Depends On Me
EGSEA123
Imports Me
Suggests Me
EGSEAdata
Links To Me
Build Report
Build Report
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package
EGSEA_1.12.0.tar.gz
Windows Binary
EGSEA_1.12.0.zip
Mac OS X 10.11 (El Capitan)
EGSEA_1.12.0.tgz
Source Repository
git clone https://git.bioconductor.org/packages/EGSEA
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/EGSEA
Bioc Package Browser
https://code.bioconductor.org/browse/EGSEA/
Package Short Url
https://bioconductor.org/packages/EGSEA/
Package Downloads Report
Download Stats
Old Source Packages for BioC 3.9
Source Archive