Package: peakCombiner
Title: The R package to curate and merge enriched genomic regions into consensus peak sets
Version: 1.1.0
Description: peakCombiner, a fully R based, user-friendly, transparent, and customizable tool that allows even novice R users to create a high-quality consensus peak list. The modularity of its functions allows an easy way to optimize input and output data. A broad range of accepted input data formats can be used to create a consensus peak set that can be exported to a file or used as the starting point for most downstream peak analyses. 
Authors@R: c(person("Markus", "Muckenhuber",
                email = "markusmuckenhuber@gmx.at", 
                role = c("aut", "cre"), 
                comment = c(ORCID = "0000-0003-1897-2329")),
             person("Charlotte", "Soneson",
                email = "",
                role = c("aut"),
                comment = c(ORCID = "0000-0003-3833-2169")),
             person("Michael", "Stadler",
                email = "",
                role = c("aut"),
                comment = c(ORCID = "0000-0002-2269-4934")),
            person("Kathleen", "Sprouffske",
                email = "",
                role = c("aut"),
                comment = c(ORCID = "0000-0001-7081-2598")),
             person("Novartis Biomedical Research", 
                role = c("cph")))
Depends: R (>= 4.5.0)
License: MIT + file LICENSE
LazyData: FALSE
biocViews:
    WorkflowStep,
    Preprocessing,
    ChipOnChip
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Suggests: 
    testthat (>= 3.0.0),
    tidyverse,
    rmarkdown,
    styler,
    cli,
    lintr,
    rtracklayer,
    knitr,
    devtools,
    ggplot2,
    BiocStyle,
    BiocManager,
    usethis,
    utils,
    AnnotationHub,
    GenomeInfoDb
Imports: 
    tidyr,
    dplyr (>= 1.1.2),
    IRanges,
    GenomicRanges,
    tidyselect,
    purrr,
    readr (>= 2.1.2),
    tibble (>= 3.2.1),
    rlang,
    stringr,
    here,
    stats,
    Seqinfo
URL:
    https://github.com/novartis/peakCombiner/, 
    https://bioconductor.org/packages/peakCombiner
BugReports: https://github.com/novartis/peakCombiner/issues
Config/testthat/edition: 3
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/peakCombiner
git_branch: devel
git_last_commit: 266aae6
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
