DOI: 10.18129/B9.bioc.rgsepd    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see rgsepd.

Gene Set Enrichment / Projection Displays

Bioconductor version: 3.8

R/GSEPD is a bioinformatics package for R to help disambiguate transcriptome samples (a matrix of RNA-Seq counts at RefSeq IDs) by automating differential expression (with DESeq2), then gene set enrichment (with GOSeq), and finally a N-dimensional projection to quantify in which ways each sample is like either treatment group.

Author: Karl Stamm

Maintainer: Karl Stamm <karl.stamm at gmail.com>

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


To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



PDF R Script An Introduction to the rgsepd package
PDF   Reference Manual
Text   NEWS


biocViews DifferentialExpression, GeneSetEnrichment, ImmunoOncology, RNASeq, Software
Version 1.14.1
In Bioconductor since BioC 3.1 (R-3.2) (4 years)
License GPL-3
Depends R (>= 3.5.0), DESeq2, goseq(>= 1.28)
Imports gplots, biomaRt, org.Hs.eg.db, GO.db, SummarizedExperiment, hash, AnnotationDbi
Suggests boot, tools, BiocGenerics, knitr, xtable
Depends On Me
Imports Me
Suggests Me
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package rgsepd_1.14.1.tar.gz
Windows Binary rgsepd_1.14.1.zip
Mac OS X 10.11 (El Capitan) rgsepd_1.14.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/rgsepd
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rgsepd
Package Short Url http://bioconductor.org/packages/rgsepd/
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