Package: DOSE
Type: Package
Title: Disease Ontology Semantic and Enrichment analysis
Version: 4.7.2
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: Provides ontology-aware methods for disease and phenotype
    knowledge mining. DOSE supports semantic similarity analysis of disease
    and phenotype ontology terms, genes, and gene clusters using methods
    including Resnik, Schlicker, Jiang, Lin, and Wang. It also provides
    over-representation analysis and gene set enrichment analysis for
    interpreting gene vectors and ranked gene lists in disease, phenotype,
    and cancer contexts.
Depends: R (>= 3.5.0)
Imports: AnnotationDbi, enrichit (>= 0.0.4), ggplot2, GOSemSim (>=
        2.39.2), gson (>= 0.0.5), memoise, methods, reshape2, utils,
        yulab.utils (> 0.2.2)
Suggests: clusterProfiler, knitr, org.Hs.eg.db, org.Mm.eg.db, quarto,
        testthat
VignetteBuilder: quarto
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: 2026-07-15 21:34:59 UTC; biocbuild
biocViews: Annotation, Visualization, MultipleComparison,
        GeneSetEnrichment, Pathways, Software
Config/roxygen2/version: 8.0.0
git_url: https://git.bioconductor.org/packages/DOSE
git_branch: devel
git_last_commit: 43eb856
git_last_commit_date: 2026-07-15
Repository: Bioconductor 3.24
Date/Publication: 2026-07-15
NeedsCompilation: no
Author: Guangchuang Yu [aut, cre],
  Li-Gen Wang [ctb],
  Vladislav Petyuk [ctb],
  Giovanni Dall'Olio [ctb]
