Package: regioneReloaded
Type: Package
Title: RegioneReloaded: Multiple Association for Genomic Region Sets
Version: 1.12.0
Authors@R: c(
    person(given = "Roberto",
           family = "Malinverni",
           role = c("aut", "cre"),
           email = "roberto.malinverni@gmail.com",
           comment = c(ORCID ="0000-0002-0113-3417")),
    person(given = "David",
           family = "Corujo",
           role = c("aut"),
           email = "dcorujo@carrerasresearch.org"),
    person(given = "Bernat",
           family = "Gel",
           role = c("aut"),
           email = "bgel@igtp.org"))
URL: https://github.com/RMalinverni/regioneReload
Description: RegioneReloaded is a package that allows simultaneous
        analysis of associations between genomic region sets, enabling
        clustering of data and the creation of ready-to-publish graphs.
        It takes over and expands on all the features of its
        predecessor regioneR. It also incorporates a strategy to
        improve p-value calculations and normalize z-scores coming from
        multiple analysis to allow for their direct comparison.
        RegioneReloaded builds upon regioneR by adding new plotting
        functions for obtaining publication-ready graphs.
License: Artistic-2.0
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.2.1
Roxygen: list(markdown = TRUE)
Depends: R (>= 4.2), regioneR
Imports: stats, RColorBrewer, Rtsne, umap, ggplot2, ggrepel, reshape2,
        methods, scales, cluster, grid, grDevices
Suggests: rmarkdown, BiocStyle, GenomeInfoDb, knitr, testthat (>=
        3.0.0)
biocViews: Genetics, ChIPSeq, DNASeq, MethylSeq, CopyNumberVariation,
        Clustering, MultipleComparison
VignetteBuilder: knitr
Config/testthat/edition: 3
Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev python3 xz-utils zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:18:25 UTC
RemoteUrl: https://github.com/bioc/regioneReloaded
RemoteRef: RELEASE_3_22
RemoteSha: f9a94626ddc155b674cc1682e306eedbae6d66ca
NeedsCompilation: no
Packaged: 2026-01-24 21:02:54 UTC; root
Author: Roberto Malinverni [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-0113-3417>),
  David Corujo [aut],
  Bernat Gel [aut]
Maintainer: Roberto Malinverni <roberto.malinverni@gmail.com>
Built: R 4.5.2; ; 2026-01-24 21:34:43 UTC; unix
