Package: betterChromVAR
Title: Improved ChromVAR (Chromatin Variation Across Regions)
Description: A much faster analytical implementation of chromVAR, with
        additional features, used to infer TF activity from (bulk or
        single-cell) ATAC-seq data and motif annotations (or binding
        probabilities). The package also includes the CVnorm
        normalization method based on the chromVAR logic.
Version: 1.0.0
Authors@R: 
    person("Pierre-Luc", "Germain", email="pierre-luc.germain@hest.ethz.ch", role=c("aut","cre"),
           comment=c(ORCID="0000-0003-3418-4218"))
License: GPL (>= 3)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
URL: https://github.com/plger/betterChromVAR
BugReports: https://github.com/plger/betterChromVAR/issues
biocViews: Software, ATACSeq, Normalization, Epigenetics, Sequencing
Depends: SummarizedExperiment
Imports: BiocParallel, Biostrings, GenomicRanges, IRanges, Matrix,
        matrixStats, methods, S4Vectors, stats
Suggests: BiocStyle, knitr, rmarkdown, sessioninfo, testthat
Config/testthat/edition: 3
VignetteBuilder: knitr
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:06:54 UTC
RemoteUrl: https://github.com/bioc/betterChromVAR
RemoteRef: RELEASE_3_23
RemoteSha: ccfe5c09cceb146c41972a3ea50ed7b233881870
NeedsCompilation: no
Packaged: 2026-04-29 18:19:21 UTC; root
Author: Pierre-Luc Germain [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-3418-4218>)
Maintainer: Pierre-Luc Germain <pierre-luc.germain@hest.ethz.ch>
Built: R 4.6.0; ; 2026-04-29 18:38:41 UTC; windows
