Package: RiboProfiling
Type: Package
Title: Ribosome Profiling Data Analysis: from BAM to Data
        Representation and Interpretation
Version: 1.34.0
Date: 2021-11-17
Author: Alexandra Popa
Maintainer: A. Popa <alexandra.mariela.popa@gmail.com>
Description: Starting with a BAM file, this package provides the
    necessary functions for quality assessment, read start position
    recalibration, the counting of reads on CDS, 3'UTR, and 5'UTR,
    plotting of count data: pairs, log fold-change, codon frequency
    and coverage assessment, principal component analysis on codon
    coverage.
biocViews: RiboSeq, Sequencing, Coverage, Alignment, QualityControl,
        Software, PrincipalComponent
Depends: R (>= 3.5.0), Biostrings
Imports: BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, reshape2,
        GenomicFeatures, grid, plyr, S4Vectors, GenomicAlignments,
        ggplot2, ggbio, Rsamtools, rtracklayer, data.table, sqldf
Suggests: knitr, BiocStyle, TxDb.Hsapiens.UCSC.hg19.knownGene,
        BSgenome.Hsapiens.UCSC.hg19, testthat, SummarizedExperiment
LazyLoad: yes
License: GPL-3
VignetteBuilder: knitr
NeedsCompilation: no
RoxygenNote: 5.0.1
git_url: https://git.bioconductor.org/packages/RiboProfiling
git_branch: RELEASE_3_19
git_last_commit: 324d233
git_last_commit_date: 2024-04-30
Repository: Bioconductor 3.19
Date/Publication: 2024-05-01
Packaged: 2024-05-02 01:28:15 UTC; biocbuild
Built: R 4.4.0; ; 2024-05-02 13:23:50 UTC; windows
