This is the development version of fedup; for the stable release version, see fedup.
Fisher's Test for Enrichment and Depletion of User-Defined PathwaysBioconductor version: Development (3.22)
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.
Author: Catherine Ross [aut, cre]
Maintainer: Catherine Ross <catherinem.ross at mail.utoronto.ca>
Citation (from within R, entercitation("fedup")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("fedup")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("fedup")Follow Installation instructions to use this package in your R session.
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