Package: ribosomeProfilingQC
Type: Package
Title: Ribosome Profiling Quality Control
Version: 1.25.1
Authors@R: c(person(given="Jianhong", family="Ou", email="jou@morgridge.org", 
        role=c("aut", "cre"), comment=c(ORCID="0000-0002-8652-2488")),
        person(given="Mariah", family="Hoye", email="mariah.hoye@duke.edu",
        role=c("aut")))
Description: Ribo-Seq (also named ribosome profiling or footprinting)
        measures translatome (unlike RNA-Seq, which sequences the
        transcriptome) by direct quantification of the
        ribosome-protected fragments (RPFs). This package provides the
        tools for quality assessment of ribosome profiling. In
        addition, it can preprocess Ribo-Seq data for subsequent
        differential analysis.
License: GPL (>=3) + file LICENSE
Encoding: UTF-8
biocViews: RiboSeq, Sequencing, GeneRegulation, QualityControl,
        Visualization, Coverage
VignetteBuilder: knitr
RoxygenNote: 8.0.0
Depends: R (>= 4.0), GenomicRanges
Imports: AnnotationDbi, BiocGenerics, Biostrings, BSgenome, cigarillo,
        EDASeq, GenomicAlignments, GenomicFeatures, Seqinfo,
        GenomeInfoDb, IRanges, methods, motifStack, rtracklayer,
        Rsamtools, RUVSeq, Rsubread, S4Vectors, XVector, ggplot2,
        ggfittext, scales, ggrepel, utils, cluster, stats, graphics,
        grid, txdbmaker, ggExtra
Suggests: RUnit, BiocStyle, knitr, BSgenome.Drerio.UCSC.danRer10,
        GenomeInfoDbData, edgeR, DESeq2, limma, ashr, testthat,
        rmarkdown, vsn, Biobase
Config/pak/sysreqs: cmake make libgsl0-dev libbz2-dev libicu-dev
        libjpeg-dev liblzma-dev libpng-dev libuv1-dev libxml2-dev
        libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-07-17 18:42:56 UTC
RemoteUrl: https://github.com/bioc/ribosomeProfilingQC
RemoteRef: HEAD
RemoteSha: 5623c88a81aa120a8c2ad7624fc0664696e4dc73
NeedsCompilation: no
Packaged: 2026-07-17 21:40:36 UTC; root
Author: Jianhong Ou [aut, cre] (ORCID: <https://orcid.org/0000-0002-8652-2488>),
  Mariah Hoye [aut]
Maintainer: Jianhong Ou <jou@morgridge.org>
Built: R 4.6.1; ; 2026-07-17 21:44:22 UTC; windows
