R-GenomicFeatures-1.14.2-2.fc21.noarch.rpm


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Description

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

Property Value
Distribution Fedora Rawhide
Repository Fedora x86_64
Package name R-GenomicFeatures
Package version 1.14.2
Package release 2.fc21
Package architecture noarch
Package type rpm
Installed size 2.51 MB
Download size 974.12 KB
Official Mirror dl.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 - - -

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 = 1.14.2-2.fc21

Download

Type URL
Binary Package R-GenomicFeatures-1.14.2-2.fc21.noarch.rpm
Source Package R-GenomicFeatures-1.14.2-2.fc21.src.rpm

Install Howto

Install the R-GenomicFeatures rpm package:

# dnf install R-GenomicFeatures

Files

Path
/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/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/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/extdata/Aedes_aegypti.partial.gtf
/usr/share/R/library/GenomicFeatures/extdata/Biomart_Ensembl_sample.sqlite
/usr/share/R/library/GenomicFeatures/extdata/FeatureDb.sqlite
/usr/share/R/library/GenomicFeatures/extdata/NC_011025.gff.txt
/usr/share/R/library/GenomicFeatures/extdata/TESTFLYGFF3.sqlite
/usr/share/R/library/GenomicFeatures/extdata/TESTGFF.sqlite
/usr/share/R/library/GenomicFeatures/extdata/TESTGTF.sqlite
/usr/share/R/library/GenomicFeatures/extdata/UCSC_knownGene_sample.rda
/usr/share/R/library/GenomicFeatures/extdata/UCSC_knownGene_sample.sqlite
/usr/share/R/library/GenomicFeatures/extdata/UCSC_knownToLocusLink_sample.rda
/usr/share/R/library/GenomicFeatures/extdata/a.gff3
/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/dmel-1000-r5.11.filtered.gff
/usr/share/R/library/GenomicFeatures/extdata/events.Rda
/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/TranscriptDb-class.html
/usr/share/R/library/GenomicFeatures/html/as-format-methods.html
/usr/share/R/library/GenomicFeatures/html/deprecated.html
/usr/share/R/library/GenomicFeatures/html/extractTranscriptsFromGenome.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/makeTranscriptDb.html
/usr/share/R/library/GenomicFeatures/html/makeTranscriptDbFromBiomart.html
/usr/share/R/library/GenomicFeatures/html/makeTranscriptDbFromGFF.html
/usr/share/R/library/GenomicFeatures/html/makeTranscriptDbFromUCSC.html
/usr/share/R/library/GenomicFeatures/html/makeTxDbPackage.html
/usr/share/R/library/GenomicFeatures/html/nearest-methods.html
/usr/share/R/library/GenomicFeatures/html/regions.html
/usr/share/R/library/GenomicFeatures/html/saveFeatures.html
/usr/share/R/library/GenomicFeatures/html/select-methods.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/inst/
/usr/share/R/library/GenomicFeatures/txdb-template/inst/extdata/
/usr/share/R/library/GenomicFeatures/txdb-template/man/package.Rd
/usr/share/R/library/GenomicFeatures/unitTests/test_TranscriptDb_seqinfo.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_makeTranscriptDb.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTranscriptDbFromBiomart.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTranscriptDbFromGFF.R
/usr/share/R/library/GenomicFeatures/unitTests/test_makeTranscriptDbFromUCSC.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

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
2013-08-02 - Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.2-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_20_Mass_Rebuild
2013-07-16 - pingou <pingou@pingoured.fr> 1.12.2-1
- Update to version 1.12.2
2013-04-07 - pingou <pingou@pingoured.fr> 1.12.0-1
- Update to version 1.12.0
2013-02-28 - pingou <pingou@pingoured.fr> 1.10.2-1
- Update to version 1.10.2
2013-02-13 - Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.10.1-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_19_Mass_Rebuild
2012-11-27 - pingou <pingou@pingoured.fr> 1.10.1-1
- Update to version 1.10.1
2012-07-18 - Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.6.1-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_18_Mass_Rebuild
2012-01-12 - Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.6.1-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_17_Mass_Rebuild

See Also

Package Description
R-GenomicRanges-1.32.3-1.fc29.x86_64.rpm Representation and manipulation of genomic intervals
R-IRanges-2.14.10-1.fc29.x86_64.rpm Low-level containers for storing sets of integer ranges
R-IRanges-devel-2.14.10-1.fc29.i686.rpm Development files for R-IRanges
R-IRanges-devel-2.14.10-1.fc29.x86_64.rpm Development files for R-IRanges
R-IRdisplay-0.5.0-1.fc29.noarch.rpm 'Jupyter' Display Machinery
R-R.cache-0.13.0-1.fc29.noarch.rpm Fast and Light-Weight Caching (Memoization) of Objects and Results
R-R.devices-2.15.1-2.fc29.noarch.rpm Unified Handling of Graphics Devices
R-R.methodsS3-1.7.1-2.fc29.noarch.rpm S3 Methods Simplified
R-R.oo-1.22.0-1.fc29.noarch.rpm R Object-Oriented Programming with or without References
R-R.rsp-0.42.0-1.fc29.noarch.rpm Dynamic Generation of Scientific Reports
R-R.utils-2.6.0-1.fc29.noarch.rpm Various Programming Utilities
R-R6-2.2.2-1.fc29.noarch.rpm Classes with Reference Semantics
R-RCurl-1.95.4.10-2.fc29.x86_64.rpm General network (HTTP/FTP) client interface for R
R-RInside-0.2.14-7.fc29.i686.rpm C++ Classes to Embed R in C++ Applications
R-RInside-0.2.14-7.fc29.x86_64.rpm C++ Classes to Embed R in C++ Applications
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