Package: chromVAR
Type: Package
Title: Chromatin Variation Across Regions
Version: 1.35.1
Authors@R: c(
    person("Alicia", "Schep", email = "aschep@gmail.com", role = c("aut","cre")),
    person("Jason", "Buenrostro", role = "ctb"),
    person("Caleb", "Lareau", role = "ctb"),
    person("William","Greenleaf", role = "ths"),
    person("Stanford University", role = "cph"))
Description: Determine variation in chromatin accessibility across sets
        of annotations or peaks. Designed primarily for single-cell or
        sparse chromatin accessibility data, e.g. from scATAC-seq or
        sparse bulk ATAC or DNAse-seq experiments.
License: MIT + file LICENSE
Imports: IRanges, Seqinfo, GenomicRanges, ggplot2, nabor, BiocParallel,
        BiocGenerics, Biostrings, pwalign, TFBSTools, Rsamtools,
        S4Vectors, methods, Rcpp, grid, plotly, shiny, miniUI, stats,
        utils, graphics, DT, Rtsne, Matrix, SummarizedExperiment,
        RColorBrewer, BSgenome
Depends: R (>= 3.5.0)
Suggests: JASPAR2016, BSgenome.Hsapiens.UCSC.hg19, readr, testthat,
        knitr, rmarkdown, pheatmap, motifmatchr
biocViews: SingleCell, Sequencing, GeneRegulation, ImmunoOncology
LazyData: TRUE
LinkingTo: Rcpp, RcppArmadillo
SystemRequirements: C++14
VignetteBuilder: knitr
RoxygenNote: 7.3.2
Config/pak/sysreqs: cmake make libgsl0-dev libbz2-dev libicu-dev
        liblzma-dev libuv1-dev libxml2-dev libssl-dev xz-utils
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-05-08 04:17:18 UTC
RemoteUrl: https://github.com/bioc/chromVAR
RemoteRef: HEAD
RemoteSha: 2bcab19bdc58877b53be5a9c8e2bdb76c5d7b874
NeedsCompilation: yes
Packaged: 2026-06-07 06:48:58 UTC; root
Author: Alicia Schep [aut, cre],
  Jason Buenrostro [ctb],
  Caleb Lareau [ctb],
  William Greenleaf [ths],
  Stanford University [cph]
Maintainer: Alicia Schep <aschep@gmail.com>