Package: diffUTR
Type: Package
Title: diffUTR: Streamlining differential exon and 3' UTR usage
Version: 1.19.0
Depends: R (>= 4.0)
Authors@R: c(
	person("Pierre-Luc", "Germain", email="pierre-luc.germain@hest.ethz.ch", 
	  role=c("cre","aut"), comment = c(ORCID = "0000-0003-3418-4218")), 
	person("Stefan", "Gerber", email="gerberst@student.ethz.ch", role="aut") )
Description: 
    The diffUTR package provides a uniform interface and plotting functions for
    limma/edgeR/DEXSeq -powered differential bin/exon usage. It includes in 
    addition an improved version of the limma::diffSplice method. Most 
    importantly, diffUTR further extends the application of these frameworks to 
    differential UTR usage analysis using poly-A site databases.
Imports:
    S4Vectors,
    SummarizedExperiment,
    limma, 
    edgeR,
    DEXSeq,
    GenomicRanges,
    Rsubread,
    ggplot2,
    rtracklayer,
    ComplexHeatmap,
    ggrepel,
    stringi,
    methods,
    stats,
    GenomeInfoDb,
    dplyr,
    matrixStats,
    IRanges,
    ensembldb,
    viridisLite
Suggests: BiocStyle, knitr, rmarkdown
biocViews: GeneExpression
BugReports: https://github.com/ETHZ-INS/diffUTR
VignetteBuilder: knitr
License: GPL-3
Encoding: UTF-8
RoxygenNote: 7.1.2
git_url: https://git.bioconductor.org/packages/diffUTR
git_branch: devel
git_last_commit: 2f86b30
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
