/usr/lib/R/site-library/GenomicFeatures/DESCRIPTION is in r-bioc-genomicfeatures 1.16.3-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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 36 37 38 39 40 41 42 43 44 45 | Package: GenomicFeatures
Title: Tools for making and manipulating transcript centric annotations
Version: 1.16.3
Author: M. Carlson, H. Pages, P. Aboyoun, S. Falcon, M. Morgan,
D. Sarkar, M. Lawrence
License: Artistic-2.0
Description: A set of tools and methods for making and manipulating
transcript centric annotations. With these tools the user can
easily download the genomic locations of the transcripts, exons
and cds of a given organism, from either the UCSC Genome
Browser or a BioMart database (more sources will be supported
in the future). This information is then stored in a local
database that keeps track of the relationship between
transcripts, exons, cds and genes. Flexible methods are
provided for extracting the desired features in a convenient
format.
Maintainer: Bioconductor Package Maintainer
<maintainer@bioconductor.org>
Depends: BiocGenerics (>= 0.1.0), IRanges (>= 1.17.13), GenomicRanges
(>= 1.15.25), AnnotationDbi (>= 1.25.7)
Imports: methods, DBI (>= 0.2-5), RSQLite (>= 0.8-1), Biostrings (>=
2.23.2), rtracklayer (>= 1.15.1), biomaRt (>= 2.17.1), RCurl,
utils, Biobase (>= 2.15.1), GenomeInfoDb
Suggests: org.Mm.eg.db, BSgenome, BSgenome.Hsapiens.UCSC.hg18 (>=
1.3.14), BSgenome.Hsapiens.UCSC.hg19 (>= 1.3.17),
BSgenome.Celegans.UCSC.ce2, BSgenome.Dmelanogaster.UCSC.dm3 (>=
1.3.17), mirbase.db, FDb.UCSC.tRNAs,
TxDb.Hsapiens.UCSC.hg18.knownGene,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Dmelanogaster.UCSC.dm3.ensGene (>= 2.7.1), Rsamtools,
pasillaBamSubset (>= 0.0.5), seqnames.db, RUnit, BiocStyle,
knitr
Collate: utils.R Ensembl.utils.R TranscriptDb-class.R FeatureDb-class.R
makeTranscriptDb.R makeTranscriptDbFromUCSC.R
makeTranscriptDbFromBiomart.R makeTranscriptDbFromGFF.R
makeFeatureDbFromUCSC.R saveFeatures.R id2name.R transcripts.R
transcriptsByOverlaps.R transcriptsBy.R regions.R features.R
extractTranscriptsFromGenome.R extractTranscriptSeqs.R
makeTxDbPackage.R seqnames-methods.R select-methods.R
nearest-methods.R getPromoterSeq-methods.R
test_GenomicFeatures_package.R
VignetteBuilder: knitr
biocViews: Genetics, Infrastructure, Annotation, Sequencing
Packaged: 2014-10-02 02:49:17 UTC; biocbuild
Built: R 3.1.1; ; 2014-10-04 21:16:48 UTC; unix
|