DESCRIPTION

Package: DESeqAnalysis
Title: Acid Genomics DESeq2 Analysis Utilities
Description: Toolkit for performing differential expression with DESeq2.
Version: 0.7.1
Date: 2024-03-27
Authors@R: c(
    person(
        given = "Michael",
        family = "Steinbaugh",
        email = "mike@steinbaugh.com",
        role = c("aut", "cre"),
        comment = c(ORCID = "0000-0002-2403-2221")
    ),
    person(
        given = "Acid Genomics",
        role = c("cph", "fnd")
    ))
URL:
    https://r.acidgenomics.com/packages/deseqanalysis/,
    https://github.com/acidgenomics/r-deseqanalysis/
BugReports: https://github.com/acidgenomics/r-deseqanalysis/issues/
License: AGPL-3
Encoding: UTF-8
LazyData: false
Depends: R (>= 4.3)
Imports:
    AcidBase (>= 0.7.3),
    AcidCLI (>= 0.3.0),
    AcidExperiment (>= 0.5.4),
    AcidGenerics (>= 0.7.7),
    AcidGenomes (>= 0.7.2),
    AcidMarkdown (>= 0.3.0),
    AcidPlots (>= 0.7.3),
    AcidPlyr (>= 0.5.4),
    BiocGenerics (>= 0.48.0),
    DESeq2 (>= 1.42.0),
    IRanges (>= 2.36.0),
    S4Vectors (>= 0.40.0),
    SummarizedExperiment (>= 1.32.0),
    ggplot2 (>= 3.5.0),
    goalie (>= 0.7.7),
    pipette (>= 0.15.2),
    syntactic (>= 0.7.1),
    methods,
    stats,
    utils
Suggests:
    ComplexUpset (>= 1.3.3),
    apeglm (>= 1.24.0),
    ashr (>= 2.2.63),
    basejump (>= 0.18.0),
    ggrepel (>= 0.9.5),
    knitr (>= 1.45),
    pheatmap (>= 1.0.12),
    rmarkdown (>= 2.26),
    testthat (>= 3.2.1),
    tximport (>= 1.30.0),
    tximportData (>= 1.30.0)
Additional_repositories: https://r.acidgenomics.com
Config/testthat/edition: 3
Config/testthat/parallel: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
biocViews: DifferentialExpression, RNASeq