Package: RiboProfiling
Type: Package
Title: Ribosome Profiling Data Analysis: from BAM to Data
        Representation and Interpretation
Version: 1.7.1
Date: 2017-04-29
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 (>= 3.2.2), 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
Packaged: 2017-05-01 00:18:50 UTC; biocbuild
Built: R 3.4.1; ; 2017-11-13 00:20:03 UTC; unix
