Package: regionReport
Type: Package
Title: Generate HTML or PDF reports for a set of genomic regions or
        DESeq2/edgeR results
Version: 1.46.0
Date: 2025-07-22
Authors@R: c(person("Leonardo", "Collado-Torres", role = c("aut", "cre"), email
    = "lcolladotor@gmail.com", comment = c(ORCID = "0000-0003-2140-308X")),
    person(c("Andrew", "E."), "Jaffe", role = "aut",
    email = "andrew.jaffe@libd.org", comment = c(ORCID = "0000-0001-6886-1454")),
    person(c("Jeffrey", "T."), "Leek", role = c("aut", "ths"),
    email = "jtleek@gmail.com", comment = c(ORCID = "0000-0002-2873-2671")))
Description: Generate HTML or PDF reports to explore a set of regions
        such as the results from annotation-agnostic expression
        analysis of RNA-seq data at base-pair resolution performed by
        derfinder. You can also create reports for DESeq2 or edgeR
        results.
License: Artistic-2.0
URL: https://github.com/leekgroup/regionReport
BugReports: https://support.bioconductor.org/t/regionReport/
VignetteBuilder: knitr
biocViews: DifferentialExpression, Sequencing, RNASeq, Software,
        Visualization, Transcription, Coverage, ReportWriting,
        DifferentialMethylation, DifferentialPeakCalling,
        ImmunoOncology, QualityControl
Depends: R(>= 3.2)
Imports: BiocStyle (>= 2.5.19), derfinder (>= 1.25.3), DEFormats,
        DESeq2, Seqinfo, GenomeInfoDb, GenomicRanges, knitr (>= 1.6),
        knitrBootstrap (>= 0.9.0), methods, RefManageR, rmarkdown (>=
        0.9.5), S4Vectors, SummarizedExperiment, utils
Suggests: BiocManager, biovizBase, bumphunter (>= 1.7.6), derfinderPlot
        (>= 1.29.1), sessioninfo, DT, edgeR, ggbio (>= 1.35.2),
        ggplot2, grid, gridExtra, IRanges, mgcv, pasilla, pheatmap,
        RColorBrewer, TxDb.Hsapiens.UCSC.hg19.knownGene, whisker
RoxygenNote: 7.3.2
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Config/pak/sysreqs: cmake make libbz2-dev libicu-dev liblzma-dev
        libpng-dev libuv1-dev libxml2-dev libssl-dev xz-utils
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:39:52 UTC
RemoteUrl: https://github.com/bioc/regionReport
RemoteRef: RELEASE_3_23
RemoteSha: 0b5727526bcfef664522bde1f681ce5ee2add101
NeedsCompilation: no
Packaged: 2026-05-01 09:42:29 UTC; root
Author: Leonardo Collado-Torres [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-2140-308X>),
  Andrew E. Jaffe [aut] (ORCID: <https://orcid.org/0000-0001-6886-1454>),
  Jeffrey T. Leek [aut, ths] (ORCID:
    <https://orcid.org/0000-0002-2873-2671>)
Maintainer: Leonardo Collado-Torres <lcolladotor@gmail.com>
Built: R 4.6.0; ; 2026-05-01 10:00:53 UTC; unix
