Package: DOSE
Type: Package
Title: Disease Ontology Semantic and Enrichment analysis
Version: 4.4.0
Authors@R: c( person(given = "Guangchuang", family = "Yu",        email = "guangchuangyu@gmail.com",   role = c("aut", "cre")),
              person(given = "Li-Gen",      family = "Wang",      email = "reeganwang020@gmail.com",   role = "ctb"),
              person(given = "Vladislav",   family = "Petyuk",    email = "petyuk@gmail.com",          role = "ctb"),
              person(given = "Giovanni",    family = "Dall'Olio", email = "giovanni.dallolio@upf.edu", role = "ctb"))
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Description: This package implements five methods proposed by Resnik,
        Schlicker, Jiang, Lin and Wang respectively for measuring
        semantic similarities among DO terms and gene products.
        Enrichment analyses including hypergeometric model and gene set
        enrichment analysis are also implemented for discovering
        disease associations of high-throughput biological data.
Depends: R (>= 3.5.0)
Imports: AnnotationDbi, BiocParallel, fgsea, ggplot2, GOSemSim (>=
        2.31.2), methods, qvalue, reshape2, stats, utils, yulab.utils
        (>= 0.1.6)
Suggests: prettydoc, clusterProfiler, gson (>= 0.0.5), knitr, memoise,
        org.Hs.eg.db, rmarkdown, testthat
VignetteBuilder: knitr
ByteCompile: true
License: Artistic-2.0
Encoding: UTF-8
URL: https://yulab-smu.top/contribution-knowledge-mining/
BugReports: https://github.com/GuangchuangYu/DOSE/issues
Packaged: 2026-01-30 20:37:04 UTC; root
biocViews: Annotation, Visualization, MultipleComparison,
        GeneSetEnrichment, Pathways, Software
RoxygenNote: 7.3.2
Config/pak/sysreqs: make libicu-dev libpng-dev libssl-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:07:51 UTC
RemoteUrl: https://github.com/bioc/DOSE
RemoteRef: RELEASE_3_22
RemoteSha: 963047a874c7e8fc938ec60e9ba466f74cdc9293
NeedsCompilation: no
Author: Guangchuang Yu [aut, cre],
  Li-Gen Wang [ctb],
  Vladislav Petyuk [ctb],
  Giovanni Dall'Olio [ctb]
Built: R 4.5.2; ; 2026-01-30 20:39:26 UTC; windows
