Package: geneset
Type: Package
Title: Get Gene Sets for Gene Enrichment Analysis
Version: 0.2.8
Authors@R: 
    c(person(given = "Yunze",
             family = "Liu",
             role = c("aut", "cre"),
             email = "jieandze1314@gmail.com",
             comment = c(ORCID = "0000-0002-7414-8556")))
Maintainer: Yunze Liu <jieandze1314@gmail.com>
URL: https://github.com/GangLiLab/geneset
BugReports: https://github.com/GangLiLab/geneset/issues
Description: Gene sets are fundamental for gene enrichment analysis.
        The package 'geneset' enables querying gene sets from public
        databases including 'GO' (Gene Ontology Consortium. (2004)
        <doi:10.1093/nar/gkh036>), 'KEGG' (Minoru et al. (2000)
        <doi:10.1093/nar/28.1.27>), 'WikiPathway' (Marvin et al. (2020)
        <doi:10.1093/nar/gkaa1024>), 'MsigDb' (Arthur et al. (2015)
        <doi:10.1016/j.cels.2015.12.004>), 'Reactome' (David et al.
        (2011) <doi:10.1093/nar/gkq1018>), 'MeSH' (Ish et al. (2014)
        <doi:10.4103/0019-5413.139827>), 'DisGeNET' (Janet et al.
        (2017) <doi:10.1093/nar/gkw943>), 'Disease Ontology' (Lynn et
        al. (2011) <doi:10.1093/nar/gkr972>), 'Network of Cancer Genes'
        (Dimitra et al. (2019) <doi:10.1186/s13059-018-1612-0>) and
        'COVID-19' (Maxim et al. (2020)
        <doi:10.21203/rs.3.rs-28582/v1>). Gene sets are stored in the
        list object which provides data frame of 'geneset' and
        'geneset_name'. The 'geneset' has two columns of term ID and
        gene ID. The 'geneset_name' has two columns of terms ID and
        term description.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.6)
Imports: dplyr, RCurl, fst, stringi, stringr
RoxygenNote: 7.2.2
Suggests: testthat (>= 3.0.0)
Config/testthat/edition: 3
Config/pak/sysreqs: make libicu-dev
Repository: https://ganglilab.r-universe.dev
Date/Publication: 2023-08-09 04:45:04 UTC
RemoteUrl: https://github.com/ganglilab/geneset
RemoteRef: HEAD
RemoteSha: b5c20beeccd6b60b7a24fcda4dcdf1032fc8238d
NeedsCompilation: no
Packaged: 2026-06-19 10:44:34 UTC; root
Author: Yunze Liu [aut, cre] (ORCID: <https://orcid.org/0000-0002-7414-8556>)