Package: diffEnrich
Title: Given a List of Gene Symbols, Performs Differential Enrichment
        Analysis
Version: 0.1.2
Authors@R: 
    c(person(given = "Harry",
             family = "Smith",
             role = c("aut", "cre"),
             email = "harry.smith@ucdenver.edu"),
      person(given = "Laura",
             family = "Saba",
             role = "aut",
             email = "laura.saba@ucdenver.edu"))
Description: Compare functional enrichment between two
        experimentally-derived groups of genes or proteins (Peterson,
        DR., et al.(2018)) <doi: 10.1371/journal.pone.0198139>. Given a
        list of gene symbols, 'diffEnrich' will perform differential
        enrichment analysis using the Kyoto Encyclopedia of Genes and
        Genomes (KEGG) REST API. This package provides a number of
        functions that are intended to be used in a pipeline. Briefly,
        the user provides a KEGG formatted species id for either human,
        mouse or rat, and the package will download and clean species
        specific ENTREZ gene IDs and map them to their respective KEGG
        pathways by accessing KEGG's REST API. KEGG's API is used to
        guarantee the most up-to-date pathway data from KEGG. Next, the
        user will identify significantly enriched pathways from two
        gene sets, and finally, the user will identify pathways that
        are differentially enriched between the two gene sets. In
        addition to the analysis pipeline, this package also provides a
        plotting function.
License: GPL-2
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
URL: https://github.com/SabaLab/diffEnrich
BugReports: https://github.com/SabaLab/diffEnrich/issues
Suggests: knitr, rmarkdown, kableExtra, diagram
Depends: dplyr, ggplot2, R (>= 2.10)
Imports: here, stats, rlang, stringr, reshape2, ggnewscale
VignetteBuilder: knitr
Config/pak/sysreqs: libicu-dev
Repository: https://sabalab.r-universe.dev
Date/Publication: 2022-06-27 17:27:35 UTC
RemoteUrl: https://github.com/sabalab/diffenrich
RemoteRef: HEAD
RemoteSha: 1c772eaf63ff7897ab9efbb50eadcb1ecd49990e
NeedsCompilation: no
Packaged: 2026-09-17 09:27:44 UTC; root
Author: Harry Smith [aut, cre],
  Laura Saba [aut]
Maintainer: Harry Smith <harry.smith@ucdenver.edu>