R-GenomicFeatures-1.14.2-2-rosa2014.1.x86_64.rpm


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Description

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

Property Value
Distribution ROSA 2014.1
Repository ROSA Contrib x86_64
Package name R-GenomicFeatures
Package version 1.14.2
Package release 2-rosa2014.1
Package architecture x86_64
Package type rpm
Installed size 2.51 MB
Download size 934.56 KB
Official Mirror mirror.rosalab.ru
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-1.20.1-1-rosa2014.1.i586.rpm 1.20.1 i586 ROSA Contrib Updates
R-GenomicFeatures-1.20.1-1-rosa2014.1.x86_64.rpm 1.20.1 x86_64 ROSA Contrib Updates
R-GenomicFeatures-1.14.2-2-rosa2014.1.i586.rpm 1.14.2 i586 ROSA Contrib
R-GenomicFeatures - - -

Requires

Name Value
R-AnnotationDbi -
R-BSgenome -
R-BSgenome.Celegans.UCSC.ce2 -
R-BSgenome.Hsapiens.UCSC.hg18 -
R-Biobase -
R-Biostrings -
R-DBI -
R-GenomicRanges -
R-IRanges -
R-RCurl -
R-RSQLite -
R-RUnit -
R-biomaRt -
R-methods -
R-org.Mm.eg.db -
R-rtracklayer -
R-utils -

Provides

Name Value
R-GenomicFeatures == 1.14.2-2:2014.1

Download

Type URL
Binary Package R-GenomicFeatures-1.14.2-2-rosa2014.1.x86_64.rpm
Source Package R-GenomicFeatures-1.14.2-2.src.rpm

Install Howto

  1. Enable ROSA Contrib repository on Install and Remove Software"
  2. Update packages list:
    # urpmi.update -a
  3. Install R-GenomicFeatures rpm package:
    # urpmi R-GenomicFeatures

Files

Path
/usr/lib64/R/library/GenomicFeatures/DESCRIPTION
/usr/lib64/R/library/GenomicFeatures/INDEX
/usr/lib64/R/library/GenomicFeatures/NAMESPACE
/usr/lib64/R/library/GenomicFeatures/NEWS
/usr/lib64/R/library/GenomicFeatures/Meta/Rd.rds
/usr/lib64/R/library/GenomicFeatures/Meta/hsearch.rds
/usr/lib64/R/library/GenomicFeatures/Meta/links.rds
/usr/lib64/R/library/GenomicFeatures/Meta/nsInfo.rds
/usr/lib64/R/library/GenomicFeatures/Meta/package.rds
/usr/lib64/R/library/GenomicFeatures/R/GenomicFeatures
/usr/lib64/R/library/GenomicFeatures/R/GenomicFeatures.rdb
/usr/lib64/R/library/GenomicFeatures/R/GenomicFeatures.rdx
/usr/lib64/R/library/GenomicFeatures/doc/GenomicFeatures.R
/usr/lib64/R/library/GenomicFeatures/doc/GenomicFeatures.Rnw
/usr/lib64/R/library/GenomicFeatures/doc/GenomicFeatures.pdf
/usr/lib64/R/library/GenomicFeatures/extdata/Aedes_aegypti.partial.gtf
/usr/lib64/R/library/GenomicFeatures/extdata/Biomart_Ensembl_sample.sqlite
/usr/lib64/R/library/GenomicFeatures/extdata/FeatureDb.sqlite
/usr/lib64/R/library/GenomicFeatures/extdata/NC_011025.gff.txt
/usr/lib64/R/library/GenomicFeatures/extdata/TESTFLYGFF3.sqlite
/usr/lib64/R/library/GenomicFeatures/extdata/TESTGFF.sqlite
/usr/lib64/R/library/GenomicFeatures/extdata/TESTGTF.sqlite
/usr/lib64/R/library/GenomicFeatures/extdata/UCSC_knownGene_sample.rda
/usr/lib64/R/library/GenomicFeatures/extdata/UCSC_knownGene_sample.sqlite
/usr/lib64/R/library/GenomicFeatures/extdata/UCSC_knownToLocusLink_sample.rda
/usr/lib64/R/library/GenomicFeatures/extdata/a.gff3
/usr/lib64/R/library/GenomicFeatures/extdata/cD.exByEdge-SG-Vig.Rda
/usr/lib64/R/library/GenomicFeatures/extdata/cD.exsByGenes-SG-Vig.Rda
/usr/lib64/R/library/GenomicFeatures/extdata/dmel-1000-r5.11.filtered.gff
/usr/lib64/R/library/GenomicFeatures/extdata/events.Rda
/usr/lib64/R/library/GenomicFeatures/help/AnIndex
/usr/lib64/R/library/GenomicFeatures/help/GenomicFeatures.rdb
/usr/lib64/R/library/GenomicFeatures/help/GenomicFeatures.rdx
/usr/lib64/R/library/GenomicFeatures/help/aliases.rds
/usr/lib64/R/library/GenomicFeatures/help/paths.rds
/usr/lib64/R/library/GenomicFeatures/html/00Index.html
/usr/lib64/R/library/GenomicFeatures/html/DEFAULT_CIRC_SEQS.html
/usr/lib64/R/library/GenomicFeatures/html/FeatureDb-class.html
/usr/lib64/R/library/GenomicFeatures/html/R.css
/usr/lib64/R/library/GenomicFeatures/html/TranscriptDb-class.html
/usr/lib64/R/library/GenomicFeatures/html/as-format-methods.html
/usr/lib64/R/library/GenomicFeatures/html/deprecated.html
/usr/lib64/R/library/GenomicFeatures/html/extractTranscriptsFromGenome.html
/usr/lib64/R/library/GenomicFeatures/html/features.html
/usr/lib64/R/library/GenomicFeatures/html/getPromoterSeq-methods.html
/usr/lib64/R/library/GenomicFeatures/html/id2name.html
/usr/lib64/R/library/GenomicFeatures/html/makeFeatureDbFromUCSC.html
/usr/lib64/R/library/GenomicFeatures/html/makeTranscriptDb.html
/usr/lib64/R/library/GenomicFeatures/html/makeTranscriptDbFromBiomart.html
/usr/lib64/R/library/GenomicFeatures/html/makeTranscriptDbFromGFF.html
/usr/lib64/R/library/GenomicFeatures/html/makeTranscriptDbFromUCSC.html
/usr/lib64/R/library/GenomicFeatures/html/makeTxDbPackage.html
/usr/lib64/R/library/GenomicFeatures/html/nearest-methods.html
/usr/lib64/R/library/GenomicFeatures/html/regions.html
/usr/lib64/R/library/GenomicFeatures/html/saveFeatures.html
/usr/lib64/R/library/GenomicFeatures/html/select-methods.html
/usr/lib64/R/library/GenomicFeatures/html/transcripts.html
/usr/lib64/R/library/GenomicFeatures/html/transcriptsBy.html
/usr/lib64/R/library/GenomicFeatures/html/transcriptsByOverlaps.html
/usr/lib64/R/library/GenomicFeatures/script/makeTxDbs.R
/usr/lib64/R/library/GenomicFeatures/script/maketRNAFDb.R
/usr/lib64/R/library/GenomicFeatures/txdb-template/DESCRIPTION
/usr/lib64/R/library/GenomicFeatures/txdb-template/NAMESPACE
/usr/lib64/R/library/GenomicFeatures/txdb-template/R/zzz.R
/usr/lib64/R/library/GenomicFeatures/txdb-template/inst/extdata
/usr/lib64/R/library/GenomicFeatures/txdb-template/man/package.Rd
/usr/lib64/R/library/GenomicFeatures/unitTests/test_TranscriptDb_seqinfo.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_getPromoterSeq-methods.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_makeIdsForUniqueDataFrameRows.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_makeTranscriptDb.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_makeTranscriptDbFromBiomart.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_makeTranscriptDbFromGFF.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_makeTranscriptDbFromUCSC.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_select-methods.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_transcripts.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_transcriptsBy.R
/usr/lib64/R/library/GenomicFeatures/unitTests/test_transcriptsByOverlaps.R

Changelog

2014-07-25 - Denis Silakov <denis.silakov@rosalab.ru> 1.14.2-2
+ Revision: de0dd3e
- MassBuild#464: Increase release tag

See Also

Package Description
R-GenomicRanges-1.14.4-2-rosa2014.1.x86_64.rpm Representation and manipulation of genomic intervals
R-HSAUR-1.3.3-2-rosa2014.1.x86_64.rpm A Handbook of Statistical Analyses Using R
R-Hmisc-3.12.2-4-rosa2014.1.x86_64.rpm Harrell Miscellaneous
R-Homo.sapiens-1.1.2-2-rosa2014.1.noarch.rpm Annotation package for the Homo.sapiens object
R-IRanges-1.20.6-2-rosa2014.1.x86_64.rpm Infrastructure for manipulating intervals on sequences
R-ISwR-2.0_6-3-rosa2014.1.noarch.rpm Introductory Statistics with R
R-JGR-1.7.16-2-rosa2014.1.noarch.rpm JGR - Java GUI for R
R-JavaGD-0.6.1-2-rosa2014.1.x86_64.rpm Java Graphics Device
R-KEGG.db-2.10.1-2-rosa2014.1.noarch.rpm A set of annotation maps for KEGG
R-Kendall-2.2-2-rosa2014.1.x86_64.rpm Kendall rank correlation and Mann-Kendall trend test
R-LearnBayes-2.12-2-rosa2014.1.noarch.rpm Functions for Learning Bayesian Inference
R-MBESS-3.3.3-2-rosa2014.1.noarch.rpm MBESS
R-MCMCpack-1.3.3-2-rosa2014.1.x86_64.rpm Markov chain Monte Carlo (MCMC) Package
R-MEMSS-0.9.2-2-rosa2014.1.noarch.rpm Data sets from Mixed-effects Models in S
R-MPV-1.29-2-rosa2014.1.noarch.rpm Data Sets from Montgomery, Peck and Vining's Book
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