Package: profileplyr
Type: Package
Title: Visualization and annotation of read signal over genomic ranges
        with profileplyr
Version: 1.26.1
Date: 2025-07-22
Author: Tom Carroll and Doug Barrows
Maintainer: Tom Carroll <tc.infomatics@gmail.com>, Doug Barrows
 <doug.barrows@gmail.com>
Depends: R (>= 3.6), BiocGenerics, SummarizedExperiment
Description: Quick and straightforward visualization of read signal
        over genomic intervals is key for generating hypotheses from
        sequencing data sets (e.g. ChIP-seq, ATAC-seq,
        bisulfite/methyl-seq). Many tools both inside and outside of R
        and Bioconductor are available to explore these types of data,
        and they typically start with a bigWig or BAM file and end with
        some representation of the signal (e.g. heatmap). profileplyr
        leverages many Bioconductor tools to allow for both flexibility
        and additional functionality in workflows that end with
        visualization of the read signal.
License: GPL (>= 3)
RoxygenNote: 7.3.2
biocViews: ChIPSeq, DataImport, Sequencing, ChipOnChip, Coverage
Imports: GenomicRanges, stats, soGGi, methods, utils, S4Vectors,
        R.utils, dplyr, magrittr, tidyr, IRanges, rjson,
        ChIPseeker,GenomicFeatures,TxDb.Hsapiens.UCSC.hg19.knownGene,TxDb.Hsapiens.UCSC.hg38.knownGene,TxDb.Mmusculus.UCSC.mm10.knownGene,
        TxDb.Mmusculus.UCSC.mm9.knownGene,org.Hs.eg.db,org.Mm.eg.db,rGREAT,
        pheatmap, ggplot2, EnrichedHeatmap, ComplexHeatmap, grid,
        circlize, BiocParallel, rtracklayer, Seqinfo, grDevices, rlang,
        tiff, Rsamtools
Suggests: GenomeInfoDb, BiocStyle, testthat, knitr, rmarkdown, png,
        Cairo
VignetteBuilder: knitr
Encoding: UTF-8
Config/pak/sysreqs: libcairo2-dev libfontconfig1-dev libfreetype6-dev
        libglpk-dev make libbz2-dev libicu-dev libjpeg-dev liblzma-dev
        libpng-dev libtiff-dev libxml2-dev libssl-dev perl xz-utils
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-11-19 18:31:05 UTC
RemoteUrl: https://github.com/bioc/profileplyr
RemoteRef: RELEASE_3_22
RemoteSha: 009cf8cca5e1b133029fbde0f386a9644fee8e33
NeedsCompilation: no
Packaged: 2026-01-03 22:50:28 UTC; root
Built: R 4.5.2; ; 2026-01-03 22:54:34 UTC; windows
