Package: easyRNASeq
Version: 2.46.0
Date: 2025-06-23
Type: Package
Title: Count summarization and normalization for RNA-Seq data
Author: Nicolas Delhomme, Ismael Padioleau, Bastian Schiffthaler,
        Niklas Maehler
Maintainer: Nicolas Delhomme <nicolas.delhomme@umu.se>
Description: Calculates the coverage of high-throughput short-reads
        against a genome of reference and summarizes it per feature of
        interest (e.g. exon, gene, transcript). The data can be
        normalized as 'RPKM' or by the 'DESeq' or 'edgeR' package.
Imports: Biobase (>= 2.64.0), BiocFileCache (>= 2.12.0), BiocGenerics
        (>= 0.50.0), BiocParallel (>= 1.38.0), biomaRt (>= 2.60.1),
        Biostrings (>= 2.77.2), edgeR (>= 4.2.1), Seqinfo,
        genomeIntervals (>= 1.60.0), GenomicAlignments (>= 1.45.1),
        GenomicRanges (>= 1.61.1), SummarizedExperiment (>= 1.39.1),
        graphics, IRanges (>= 2.38.1), LSD (>= 4.1-0), methods,
        parallel, rappdirs (>= 0.3.3), Rsamtools (>= 2.25.1), S4Vectors
        (>= 0.42.1), ShortRead (>= 1.62.0), utils
Suggests: BiocStyle (>= 2.32.1), BSgenome (>= 1.72.0),
        BSgenome.Dmelanogaster.UCSC.dm3 (>= 1.4.0), curl, knitr,
        rmarkdown, RUnit (>= 0.4.33)
License: Artistic-2.0
LazyLoad: yes
VignetteBuilder: knitr
biocViews: GeneExpression, RNASeq, Genetics, Preprocessing,
        ImmunoOncology
RoxygenNote: 7.3.2
Encoding: UTF-8
Config/pak/sysreqs: libbz2-dev libicu-dev libjpeg-dev liblzma-dev
        libpng-dev libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:10:00 UTC
RemoteUrl: https://github.com/bioc/easyRNASeq
RemoteRef: RELEASE_3_22
RemoteSha: e2685735b95b98f975414a134843a7c051209b25
NeedsCompilation: no
Packaged: 2026-03-04 08:56:08 UTC; root
Built: R 4.5.2; ; 2026-03-06 03:46:09 UTC; windows
