Package: fedup
Title: Fisher's Test for Enrichment and Depletion of User-Defined
        Pathways
Version: 1.21.0
Date: 2021-02-17
Depends: R (>= 4.1)
Authors@R: 
    person("Catherine", "Ross",
        email = "catherinem.ross@mail.utoronto.ca",
        role = c("aut", "cre"))
Description: 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.
biocViews: GeneSetEnrichment, Pathways, NetworkEnrichment, Network
Imports: openxlsx, tibble, dplyr, data.table, ggplot2, ggthemes,
        forcats, RColorBrewer, RCy3, utils, stats
Suggests: biomaRt, tidyr, testthat, knitr, rmarkdown, devtools, covr
LazyData: false
Encoding: UTF-8
Language: en-US
License: MIT + file LICENSE
VignetteBuilder: knitr
URL: https://github.com/rosscm/fedup
BugReports: https://github.com/rosscm/fedup/issues
RoxygenNote: 7.1.1
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libxml2-dev
        libssl-dev python3 libzmq3-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:55:28 UTC
RemoteUrl: https://github.com/bioc/fedup
RemoteRef: HEAD
RemoteSha: 816d9778110450a99dec3a0be494570cc779871f
NeedsCompilation: no
Packaged: 2026-05-30 09:14:26 UTC; root
Author: Catherine Ross [aut, cre]
Maintainer: Catherine Ross <catherinem.ross@mail.utoronto.ca>
Built: R 4.6.0; ; 2026-05-30 09:21:59 UTC; windows
