Package: HybridExpress
Title: Comparative analysis of RNA-seq data for hybrids and their
        progenitors
Version: 1.9.0
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
Config/pak/sysreqs: libpng-dev perl zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 13:02:38 UTC
RemoteUrl: https://github.com/bioc/HybridExpress
RemoteRef: HEAD
RemoteSha: 43455b3891942debecc2da46fd2422c406b0ee7a
NeedsCompilation: no
Packaged: 2026-05-30 08:01:02 UTC; root
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 4.6.0; ; 2026-05-30 08:03:06 UTC; windows
