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This package is for version 3.4 of Bioconductor;
for the stable, up-to-date release version, see
rgsepd.
Gene Set Enrichment / Projection Displays
Bioconductor version: 3.4
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")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("rgsepd")
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("rgsepd")
Details
| biocViews | DifferentialExpression, GeneSetEnrichment, RNASeq, Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (2 years) |
| License | GPL-3 |
| Depends | R (>= 3.3.0), DESeq2, goseq(>= 1.17) |
| Imports | gplots, biomaRt, org.Hs.eg.db, GO.db, SummarizedExperiment, hash, AnnotationDbi |
| LinkingTo | |
| Suggests | boot, tools, RUnit, BiocGenerics, knitr, xtable |
| 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.
Read more here: Source link
