/usr/lib/R/site-library/GenomicAlignments/DESCRIPTION is in r-bioc-genomicalignments 1.0.6-1.
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 | Package: GenomicAlignments
Title: Representation and manipulation of short genomic alignments
Description: Provides efficient containers for storing and manipulating
short genomic alignments (typically obtained by aligning short reads
to a reference genome). This includes read counting, computing the
coverage, junction detection, and working with the nucleotide content
of the alignments.
Version: 1.0.6
Author: Herv\'e Pag\`es, Valerie Obenchain, Martin Morgan
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>
biocViews: Genetics, Infrastructure, DataImport, Sequencing, RNASeq,
SNP
Depends: R (>= 2.10), methods, BiocGenerics (>= 0.7.7), IRanges (>=
1.21.25), GenomicRanges (>= 1.15.32), Biostrings (>= 2.31.10),
Rsamtools (>= 1.15.26), BSgenome (>= 1.31.12)
Imports: methods, stats, BiocGenerics, IRanges, GenomicRanges,
Biostrings, Rsamtools, BiocParallel
LinkingTo: IRanges
Suggests: rtracklayer, GenomicFeatures, RNAseqData.HNRNPC.bam.chr14,
pasillaBamSubset, TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Dmelanogaster.UCSC.dm3.ensGene,
BSgenome.Dmelanogaster.UCSC.dm3, BSgenome.Hsapiens.UCSC.hg19,
DESeq, edgeR, RUnit, BiocStyle
License: Artistic-2.0
Collate: utils.R cigar-utils.R GAlignments-class.R
GAlignmentPairs-class.R GAlignmentsList-class.R
GappedReads-class.R OverlapEncodings-class.R
findMateAlignment.R readGAlignments.R junctions-methods.R
sequenceLayer.R stackStringsFromBam.R pileLettersAt.R
intra-range-methods.R coverage-methods.R setops-methods.R
findOverlaps-methods.R map-methods.R encodeOverlaps-methods.R
findCompatibleOverlaps-methods.R summarizeOverlaps-methods.R
findSpliceOverlaps-methods.R zzz.R
Packaged: 2014-08-22 04:07:21 UTC; biocbuild
Built: R 3.1.1; x86_64-pc-linux-gnu; 2014-09-17 09:11:36 UTC; unix
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