Package: HybridExpress
Title: Comparative analysis of RNA-seq data for hybrids and their
        progenitors
Version: 1.6.0
Date: 2023-10-17
Authors@R: 
    c(
        person(
            given = "Fabricio",
            family = "Almeida-Silva",
            role = c("aut", "cre"),
            email = "fabricio_almeidasilva@hotmail.com",
            comment = c(ORCID = "0000-0002-5314-2964")
        ),
        person(
            given = "Lucas",
            family = "Prost-Boxoen",
            role = "aut",
            comment = c(ORCID = "0000-0003-2779-9097")
        ),
        person(
            given = "Yves",
            family = "Van de Peer",
            role = "aut",
            email = "yves.vandepeer@psb.vib-ugent.be",
            comment = c(ORCID = "0000-0003-4327-3730")
        )
    )
Description: HybridExpress can be used to perform comparative transcriptomics
    analysis of hybrids (or allopolyploids) relative to their
    progenitor species. The package features functions to perform exploratory
    analyses of sample grouping, identify differentially expressed genes
    in hybrids relative to their progenitors, classify genes in expression
    categories (N = 12) and classes (N = 5),
    and perform functional analyses. We also provide users with graphical
    functions for the seamless creation of publication-ready figures that are
    commonly used in the literature.
License: GPL-3
URL: https://github.com/almeidasilvaf/HybridExpress
BugReports: https://support.bioconductor.org/tag/HybridExpress
biocViews: Software, FunctionalGenomics, GeneExpression,
        Transcriptomics, RNASeq, Classification, DifferentialExpression
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Imports: ggplot2, patchwork, rlang, DESeq2, SummarizedExperiment,
        stats, methods, RColorBrewer, ComplexHeatmap, grDevices,
        BiocParallel
Suggests: BiocStyle, knitr, sessioninfo, testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
Depends: R (>= 4.3.0)
LazyData: false
git_url: https://git.bioconductor.org/packages/HybridExpress
git_branch: RELEASE_3_22
git_last_commit: b3f2227
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.22
Date/Publication: 2025-10-29
NeedsCompilation: no
Packaged: 2025-10-30 03:06:23 UTC; biocbuild
Author: Fabricio Almeida-Silva [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-5314-2964>),
  Lucas Prost-Boxoen [aut] (ORCID:
    <https://orcid.org/0000-0003-2779-9097>),
  Yves Van de Peer [aut] (ORCID: <https://orcid.org/0000-0003-4327-3730>)
Maintainer: Fabricio Almeida-Silva <fabricio_almeidasilva@hotmail.com>
Built: R 4.5.1; ; 2025-10-30 09:27:58 UTC; unix
