Package: fedup
Title: Fisher's Test for Enrichment and Depletion of User-Defined
        Pathways
Version: 1.19.0
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: make libicu-dev libxml2-dev libssl-dev python3
        libzmq3-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 15:07:28 UTC
RemoteUrl: https://github.com/bioc/fedup
RemoteRef: HEAD
RemoteSha: 11eedb88b813d76c0201f99e2bc6e2716a8ca8e7
NeedsCompilation: no
Packaged: 2026-02-22 07:53:14 UTC; root
Author: Catherine Ross [aut, cre]
Maintainer: Catherine Ross <catherinem.ross@mail.utoronto.ca>
Built: R 4.6.0; ; 2026-02-22 07:54:53 UTC; windows
