GOcontext/DESCRIPTION at main · Thomas-Rauter/GOcontext · GitHub

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Package: GOcontext
Type: Package
Title: Context-Aware Restriction of the Gene Ontology for Enrichment Analysis
Version: 0.1.0
Authors@R: c(
    person(
        given = "Thomas",
        family = "Rauter",
        email = "rauterthomas0@gmail.com",
        role = c("aut", "cre", "fnd"),
        comment = c(ORCID = "0009-0004-5578-3628")
    ))
Description: GOcontext provides tools for constructing context-specific
    subgraphs of the Gene Ontology (GO) prior to functional enrichment
    analysis. The package allows users to load a GO ontology, attach
    organism-specific GO annotations, and restrict the ontology to
    biologically relevant terms. Branches of the GO hierarchy can be
    interactively explored and selectively retained or excluded to define
    a focused hypothesis space. The resulting GO subgraph can be exported
    as TERM2GENE and TERM2NAME tables for enrichment workflows such as
    clusterProfiler::enricher(). By restricting the ontology DAG itself
    before downstream analysis, GOcontext enables reproducible curation
    of the tested GO term universe while preserving the hierarchical
    structure of the ontology.
License: MIT + file LICENSE
URL: https://thomas-rauter.github.io/GOcontext/,
    https://github.com/Thomas-Rauter/GOcontext
BugReports: https://github.com/Thomas-Rauter/GOcontext/issues
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.3.3
Depends:
    R (>= 4.5)
Imports:
    GO.db,
    AnnotationDbi,
    rlang,
    methods,
    utils
Suggests:
    org.EcK12.eg.db,
    testthat (>= 3.0.0),
    knitr,
    rmarkdown,
    BiocStyle,
    pkgdown,
    stats,
    mockery
VignetteBuilder: knitr
biocViews:
    GO,
    GeneSetEnrichment,
    Annotation,
    GraphAndNetwork,
    SystemsBiology,
    Software