README.md

In jmw86069/multienrichjam: Analysis and Visualization of Multiple Gene Set Enrichments

multienrichjam

The goal of multienrichjam is to implement MultiEnrichMap, an extension to EnrichMap and Enrichment Map, originally envisioned and implemented as a Cytoscape plugin by the lab of Dr. Gary Bader

• Bader lab EnrichmentMap, and
• reference: Merico,et al, PLoS One, 2010),

and re-implemented into a larger analysis workflow in R by Dr. Guangchuang Yu in the R packages:

• clusterProfiler, and
• enrichplot.

The MultiEnrichMap extension is a relatively straightforward set of functions to help enable comparison of enrichment results from multiple gene set enrichment tests.

Package Reference

A full online function reference is available via the pkgdown documentation:

Full multienrichjam command reference

How to install

Install using the R package remotes and this command:

remotes::install_github("jmw86069/multienrichjam",
   dependencies=TRUE);

If you do not have the remotes package, you can install it from CRAN:

install.packages("remotes");

Note that we changed the recommended installation from using devtools to using remotes because the remotes package is much smaller with fewer dependencies.

jmw86069/multienrichjam documentation built on Nov. 3, 2024, 10:29 p.m.