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: 1.1.8
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)
URL: https://github.com/plger/betterChromVAR
BugReports: https://github.com/plger/betterChromVAR/issues
biocViews: Software, ATACSeq, Normalization, Epigenetics, Sequencing
Depends: R (>= 4.1.0), SummarizedExperiment
Imports: BiocParallel, BiocNeighbors, Biostrings, DelayedMatrixStats,
        GenomicRanges, IRanges, Matrix, matrixStats, sparseMatrixStats,
        MatrixGenerics, methods, S4Vectors, stats
Suggests: BiocStyle, knitr, rmarkdown, sessioninfo, testthat
Config/testthat/edition: 3
VignetteBuilder: knitr
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-07-08 08:15:16 UTC
RemoteUrl: https://github.com/bioc/betterChromVAR
RemoteRef: HEAD
RemoteSha: 103de6fb261278becaa0572cdd1370acf76a17c0
NeedsCompilation: no
Packaged: 2026-07-08 10:47:16 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>