rosscm/fedup: Fisher's Test for Enrichment and Depletion of User-Defined Pathways

An R package that tests for enrichment and depletion of user-defined pathways using a Fisher's exact test. The method is designed for versatile pathway annotation formats (eg. gmt, txt, xlsx) to allow the user to run pathway analysis on custom annotations. This package is also integrated with Cytoscape to provide network-based pathway visualization that enhances the interpretability of the results.

Getting started

Package details

Bioconductor views GeneSetEnrichment Network NetworkEnrichment Pathways
Maintainer
LicenseMIT + file LICENSE
Version1.0.0
URL https://github.com/rosscm/fedup
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("rosscm/fedup")
rosscm/fedup documentation built on June 15, 2021, 6:13 p.m.