R-GenomicFeatures-1.32.0-1.fc28.noarch.rpm


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Description

R-GenomicFeatures - Tools for making and manipulating transcript centric annotations

Property Value
Distribution Fedora 28
Repository Fedora Updates i386
Package name R-GenomicFeatures
Package version 1.32.0
Package release 1.fc28
Package architecture noarch
Package type rpm
Installed size 4.53 MB
Download size 1.77 MB
Official Mirror download-ib01.fedoraproject.org
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.

Alternatives

Package Version Architecture Repository
R-GenomicFeatures-1.32.0-1.fc28.noarch.rpm 1.32.0 noarch Fedora Updates
R-GenomicFeatures-1.14.2-2.fc21.noarch.rpm 1.14.2 noarch Fedora
R-GenomicFeatures-1.14.2-2.fc21.noarch.rpm 1.14.2 noarch Fedora
R-GenomicFeatures - - -

Requires

Name Value
R-AnnotationDbi -
R-BSgenome -
R-Biobase -
R-Biostrings -
R-DBI -
R-GenomicRanges -
R-IRanges -
R-RCurl -
R-RSQLite -
R-biomaRt -
R-core >= 3.0.0
R-rtracklayer -
R-utils -

Provides

Name Value
R-GenomicFeatures = 1.32.0-1.fc28

Download

Type URL
Binary Package R-GenomicFeatures-1.32.0-1.fc28.noarch.rpm
Source Package R-GenomicFeatures-1.32.0-1.fc28.src.rpm

Install Howto

Install R-GenomicFeatures rpm package:

# dnf install R-GenomicFeatures

Files

Path
/usr/share/R/library/GenomicFeatures/CITATION
/usr/share/R/library/GenomicFeatures/DESCRIPTION
/usr/share/R/library/GenomicFeatures/INDEX
/usr/share/R/library/GenomicFeatures/NAMESPACE
/usr/share/R/library/GenomicFeatures/NEWS
/usr/share/R/library/GenomicFeatures/Meta/Rd.rds
/usr/share/R/library/GenomicFeatures/Meta/features.rds
/usr/share/R/library/GenomicFeatures/Meta/hsearch.rds
/usr/share/R/library/GenomicFeatures/Meta/links.rds
/usr/share/R/library/GenomicFeatures/Meta/nsInfo.rds
/usr/share/R/library/GenomicFeatures/Meta/package.rds
/usr/share/R/library/GenomicFeatures/Meta/vignette.rds
/usr/share/R/library/GenomicFeatures/R/GenomicFeatures
/usr/share/R/library/GenomicFeatures/R/GenomicFeatures.rdb
/usr/share/R/library/GenomicFeatures/R/GenomicFeatures.rdx
/usr/share/R/library/GenomicFeatures/doc/GenomicFeatures.R
/usr/share/R/library/GenomicFeatures/doc/GenomicFeatures.Rnw
/usr/share/R/library/GenomicFeatures/doc/GenomicFeatures.pdf
/usr/share/R/library/GenomicFeatures/doc/index.html
/usr/share/R/library/GenomicFeatures/extdata/Biomart_Ensembl_sample.sqlite
/usr/share/R/library/GenomicFeatures/extdata/FeatureDb.sqlite
/usr/share/R/library/GenomicFeatures/extdata/cD.exByEdge-SG-Vig.Rda
/usr/share/R/library/GenomicFeatures/extdata/cD.exsByGenes-SG-Vig.Rda
/usr/share/R/library/GenomicFeatures/extdata/events.Rda
/usr/share/R/library/GenomicFeatures/extdata/hg19_knownGene_sample.sqlite
/usr/share/R/library/GenomicFeatures/extdata/sacCer2_sgdGene_txdb.sqlite
/usr/share/R/library/GenomicFeatures/extdata/sample_ranges.rds
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/NC_011025.gff
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/TheCanonicalGene_v1.gff3
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/TheCanonicalGene_v2.gff3
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/a.gff3
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/a.sqlite
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/dmel-1000-r5.11.filtered.gff
/usr/share/R/library/GenomicFeatures/extdata/GFF3_files/dmel-1000-r5.11.filtered.sqlite
/usr/share/R/library/GenomicFeatures/extdata/GTF_files/Aedes_aegypti.partial.gtf
/usr/share/R/library/GenomicFeatures/extdata/GTF_files/Aedes_aegypti.partial.sqlite
/usr/share/R/library/GenomicFeatures/extdata/GTF_files/test1.gtf
/usr/share/R/library/GenomicFeatures/help/AnIndex
/usr/share/R/library/GenomicFeatures/help/GenomicFeatures.rdb
/usr/share/R/library/GenomicFeatures/help/GenomicFeatures.rdx
/usr/share/R/library/GenomicFeatures/help/aliases.rds
/usr/share/R/library/GenomicFeatures/help/paths.rds
/usr/share/R/library/GenomicFeatures/html/00Index.html
/usr/share/R/library/GenomicFeatures/html/DEFAULT_CIRC_SEQS.html
/usr/share/R/library/GenomicFeatures/html/FeatureDb-class.html
/usr/share/R/library/GenomicFeatures/html/R.css
/usr/share/R/library/GenomicFeatures/html/TxDb-class.html
/usr/share/R/library/GenomicFeatures/html/as-format-methods.html
/usr/share/R/library/GenomicFeatures/html/coordinate-mapping-methods.html
/usr/share/R/library/GenomicFeatures/html/coverageByTranscript.html
/usr/share/R/library/GenomicFeatures/html/disjointExons.html
/usr/share/R/library/GenomicFeatures/html/exonicParts.html
/usr/share/R/library/GenomicFeatures/html/extractTranscriptSeqs.html
/usr/share/R/library/GenomicFeatures/html/extractUpstreamSeqs.html
/usr/share/R/library/GenomicFeatures/html/features.html
/usr/share/R/library/GenomicFeatures/html/getPromoterSeq-methods.html
/usr/share/R/library/GenomicFeatures/html/id2name.html
/usr/share/R/library/GenomicFeatures/html/makeFeatureDbFromUCSC.html
/usr/share/R/library/GenomicFeatures/html/makeTxDb.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbFromBiomart.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbFromEnsembl.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbFromGFF.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbFromGRanges.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbFromUCSC.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbPackage.html
/usr/share/R/library/GenomicFeatures/html/mapIdsToRanges.html
/usr/share/R/library/GenomicFeatures/html/mapRangesToIds.html
/usr/share/R/library/GenomicFeatures/html/microRNAs.html
/usr/share/R/library/GenomicFeatures/html/nearest-methods.html
/usr/share/R/library/GenomicFeatures/html/select-methods.html
/usr/share/R/library/GenomicFeatures/html/transcriptLengths.html
/usr/share/R/library/GenomicFeatures/html/transcriptLocs2refLocs.html
/usr/share/R/library/GenomicFeatures/html/transcripts.html
/usr/share/R/library/GenomicFeatures/html/transcriptsBy.html
/usr/share/R/library/GenomicFeatures/html/transcriptsByOverlaps.html
/usr/share/R/library/GenomicFeatures/script/makeTxDbs.R
/usr/share/R/library/GenomicFeatures/script/maketRNAFDb.R
/usr/share/R/library/GenomicFeatures/txdb-template/DESCRIPTION
/usr/share/R/library/GenomicFeatures/txdb-template/NAMESPACE
/usr/share/R/library/GenomicFeatures/txdb-template/R/zzz.R
/usr/share/R/library/GenomicFeatures/txdb-template/man/package.Rd
/usr/share/R/library/GenomicFeatures/unitTests/test_TxDb_seqinfo.R
/usr/share/R/library/GenomicFeatures/unitTests/test_coordinate-mapping-methods.R
/usr/share/R/library/GenomicFeatures/unitTests/test_disjointExons.R
/usr/share/R/library/GenomicFeatures/unitTests/test_getPromoterSeq-methods.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeIdsForUniqueDataFrameRows.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTxDb.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTxDbFromBiomart.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTxDbFromGFF.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTxDbFromGRanges.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTxDbFromUCSC.R
/usr/share/R/library/GenomicFeatures/unitTests/test_mapIdsToRanges.R
/usr/share/R/library/GenomicFeatures/unitTests/test_select-methods.R
/usr/share/R/library/GenomicFeatures/unitTests/test_transcripts.R
/usr/share/R/library/GenomicFeatures/unitTests/test_transcriptsBy.R
/usr/share/R/library/GenomicFeatures/unitTests/test_transcriptsByOverlaps.R

Changelog

2018-07-10 - Pierre-Yves Chibon <pingou@pingoured.fr> - 1.32.0-1
- Update to 1.32.0
2018-02-07 - Fedora Release Engineering <releng@fedoraproject.org> - 1.20.1-5
- Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild
2017-07-26 - Fedora Release Engineering <releng@fedoraproject.org> - 1.20.1-4
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Mass_Rebuild
2017-02-10 - Fedora Release Engineering <releng@fedoraproject.org> - 1.20.1-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_26_Mass_Rebuild
2016-02-03 - Fedora Release Engineering <releng@fedoraproject.org> - 1.20.1-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_24_Mass_Rebuild
2015-07-03 - pingou <pingou@pingoured.fr> 1.20.1-1
- Update to version 1.20.1
2015-06-16 - Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.16.2-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_23_Mass_Rebuild
2014-07-02 - pingou <pingou@pingoured.fr> 1.16.2-1
- Update to version 1.16.2
2014-06-06 - Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.14.2-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild
2014-01-27 - pingou <pingou@pingoured.fr> 1.14.2-1
- Update to version 1.14.2

See Also

Package Description
R-GenomicRanges-1.32.3-1.fc28.i686.rpm Representation and manipulation of genomic intervals
R-IRanges-2.14.10-1.fc28.i686.rpm Low-level containers for storing sets of integer ranges
R-IRanges-devel-2.14.10-1.fc28.i686.rpm Development files for R-IRanges
R-IRdisplay-0.7.0-1.fc28.noarch.rpm 'Jupyter' Display Machinery
R-IRkernel-0.8.15-1.fc28.noarch.rpm Native R Kernel for the 'Jupyter Notebook'
R-R.cache-0.13.0-1.fc28.noarch.rpm Fast and Light-Weight Caching (Memoization) of Objects and Results
R-R.devices-2.16.0-1.fc28.noarch.rpm Unified Handling of Graphics Devices
R-R.oo-1.22.0-1.fc28.noarch.rpm R Object-Oriented Programming with or without References
R-R.rsp-0.43.1-1.fc28.noarch.rpm Dynamic Generation of Scientific Reports
R-R.utils-2.7.0-1.fc28.noarch.rpm Various Programming Utilities
R-RColorBrewer-1.1.2-1.fc28.noarch.rpm ColorBrewer Palettes
R-RCurl-1.95.4.10-2.fc28.i686.rpm General network (HTTP/FTP) client interface for R
R-RInside-0.2.14-7.fc28.i686.rpm C++ Classes to Embed R in C++ Applications
R-RInside-devel-0.2.14-7.fc28.i686.rpm RInside Development Files
R-RInside-examples-0.2.14-7.fc28.i686.rpm RInside Examples
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