R-Rsamtools-1.14.3-2-rosa2014.1.x86_64.rpm


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Description

R-Rsamtools - Binary alignment (BAM), variant call (BCF), or tabix file import

Property Value
Distribution ROSA 2014.1
Repository ROSA Contrib x86_64
Package name R-Rsamtools
Package version 1.14.3
Package release 2-rosa2014.1
Package architecture x86_64
Package type rpm
Installed size 5.80 MB
Download size 3.41 MB
Official Mirror mirror.rosalab.ru
This package provides an interface to the 'samtools', 'bcftools', and
'tabix' utilities (see 'LICENCE') for manipulating SAM (Sequence Alignment
/ Map), binary variant call (BCF) and compressed indexed tab-delimited
(tabix) files.

Alternatives

Package Version Architecture Repository
R-Rsamtools-1.20.4-1-rosa2014.1.i586.rpm 1.20.4 i586 ROSA Contrib Updates
R-Rsamtools-1.20.4-1-rosa2014.1.x86_64.rpm 1.20.4 x86_64 ROSA Contrib Updates
R-Rsamtools-1.14.3-2-rosa2014.1.i586.rpm 1.14.3 i586 ROSA Contrib
R-Rsamtools - - -

Requires

Name Value
R-Biostrings -
R-GenomicFeatures -
R-GenomicRanges -
R-IRanges -
R-KEGG.db -
R-RUnit -
R-ShortRead -
R-bitops -
R-methods -
R-rtracklayer -
R-utils -
R-zlibbioc -
libR.so()(64bit) -
libc.so.6()(64bit) -
libc.so.6(GLIBC_2.14)(64bit) -
libc.so.6(GLIBC_2.15)(64bit) -
libc.so.6(GLIBC_2.2.5)(64bit) -
libc.so.6(GLIBC_2.3)(64bit) -
libc.so.6(GLIBC_2.3.4)(64bit) -
libc.so.6(GLIBC_2.4)(64bit) -
libc.so.6(GLIBC_2.7)(64bit) -
libgcc_s.so.1()(64bit) -
libgcc_s.so.1(GCC_3.0)(64bit) -
libm.so.6()(64bit) -
libm.so.6(GLIBC_2.2.5)(64bit) -
libpthread.so.0()(64bit) -
libpthread.so.0(GLIBC_2.2.5)(64bit) -
libpthread.so.0(GLIBC_2.3.2)(64bit) -
libstdc++.so.6()(64bit) -
libstdc++.so.6(CXXABI_1.3)(64bit) -
libstdc++.so.6(GLIBCXX_3.4)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.15)(64bit) -
libz.so.1()(64bit) -
libz.so.1(ZLIB_1.2.2)(64bit) -
libz.so.1(ZLIB_1.2.3.3)(64bit) -

Provides

Name Value
R-Rsamtools == 1.14.3-2:2014.1
Rsamtools.so()(64bit) -

Download

Type URL
Binary Package R-Rsamtools-1.14.3-2-rosa2014.1.x86_64.rpm
Source Package R-Rsamtools-1.14.3-2.src.rpm

Install Howto

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

Files

Path
/usr/lib64/R/library/Rsamtools/DESCRIPTION
/usr/lib64/R/library/Rsamtools/INDEX
/usr/lib64/R/library/Rsamtools/LICENSE
/usr/lib64/R/library/Rsamtools/NAMESPACE
/usr/lib64/R/library/Rsamtools/NEWS
/usr/lib64/R/library/Rsamtools/Meta/Rd.rds
/usr/lib64/R/library/Rsamtools/Meta/hsearch.rds
/usr/lib64/R/library/Rsamtools/Meta/links.rds
/usr/lib64/R/library/Rsamtools/Meta/nsInfo.rds
/usr/lib64/R/library/Rsamtools/Meta/package.rds
/usr/lib64/R/library/Rsamtools/R/Rsamtools
/usr/lib64/R/library/Rsamtools/R/Rsamtools.rdb
/usr/lib64/R/library/Rsamtools/R/Rsamtools.rdx
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-Overview.R
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-Overview.Rnw
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-Overview.pdf
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-UsingCLibraries.R
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-UsingCLibraries.Rnw
/usr/lib64/R/library/Rsamtools/doc/Rsamtools-UsingCLibraries.pdf
/usr/lib64/R/library/Rsamtools/extdata/CaffeineTxdb.sqlite
/usr/lib64/R/library/Rsamtools/extdata/ce2dict1.fa
/usr/lib64/R/library/Rsamtools/extdata/ce2dict1.fa.fai
/usr/lib64/R/library/Rsamtools/extdata/ex1.bam
/usr/lib64/R/library/Rsamtools/extdata/ex1.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/ex1.bcf
/usr/lib64/R/library/Rsamtools/extdata/ex1.bcf.bci
/usr/lib64/R/library/Rsamtools/extdata/ex1.sam
/usr/lib64/R/library/Rsamtools/extdata/example.gtf.gz
/usr/lib64/R/library/Rsamtools/extdata/example.gtf.gz.tbi
/usr/lib64/R/library/Rsamtools/extdata/example_from_SAM_Spec.bam
/usr/lib64/R/library/Rsamtools/extdata/example_from_SAM_Spec.bam.bai
/usr/lib64/R/library/Rsamtools/extdata/example_from_SAM_Spec.sam
/usr/lib64/R/library/Rsamtools/extdata/olaps.Rda
/usr/lib64/R/library/Rsamtools/extdata/pileup.txt
/usr/lib64/R/library/Rsamtools/extdata/samtools-github.txt
/usr/lib64/R/library/Rsamtools/extdata/slxMaq09_urls.txt
/usr/lib64/R/library/Rsamtools/extdata/tophat/README
/usr/lib64/R/library/Rsamtools/extdata/tophat/accepted_hits.sam
/usr/lib64/R/library/Rsamtools/extdata/tophat/coverage.wig
/usr/lib64/R/library/Rsamtools/extdata/tophat/junctions.bed
/usr/lib64/R/library/Rsamtools/help/AnIndex
/usr/lib64/R/library/Rsamtools/help/Rsamtools.rdb
/usr/lib64/R/library/Rsamtools/help/Rsamtools.rdx
/usr/lib64/R/library/Rsamtools/help/aliases.rds
/usr/lib64/R/library/Rsamtools/help/paths.rds
/usr/lib64/R/library/Rsamtools/html/00Index.html
/usr/lib64/R/library/Rsamtools/html/BamFile-class.html
/usr/lib64/R/library/Rsamtools/html/BamSampler-class.html
/usr/lib64/R/library/Rsamtools/html/BamViews-class.html
/usr/lib64/R/library/Rsamtools/html/BcfFile-class.html
/usr/lib64/R/library/Rsamtools/html/FaFile-class.html
/usr/lib64/R/library/Rsamtools/html/PileupFiles-class.html
/usr/lib64/R/library/Rsamtools/html/PileupParam-class.html
/usr/lib64/R/library/Rsamtools/html/R.css
/usr/lib64/R/library/Rsamtools/html/Rsamtools-package.html
/usr/lib64/R/library/Rsamtools/html/RsamtoolsFile-class.html
/usr/lib64/R/library/Rsamtools/html/RsamtoolsFileList-class.html
/usr/lib64/R/library/Rsamtools/html/ScanBamParam-class.html
/usr/lib64/R/library/Rsamtools/html/ScanBcfParam-class.html
/usr/lib64/R/library/Rsamtools/html/TabixFile-class.html
/usr/lib64/R/library/Rsamtools/html/applyPileups.html
/usr/lib64/R/library/Rsamtools/html/defunct.html
/usr/lib64/R/library/Rsamtools/html/deprecated.html
/usr/lib64/R/library/Rsamtools/html/findMateAlignment.html
/usr/lib64/R/library/Rsamtools/html/headerTabix.html
/usr/lib64/R/library/Rsamtools/html/indexTabix.html
/usr/lib64/R/library/Rsamtools/html/quickCountBam.html
/usr/lib64/R/library/Rsamtools/html/readGAlignmentsFromBam.html
/usr/lib64/R/library/Rsamtools/html/readPileup.html
/usr/lib64/R/library/Rsamtools/html/scanBam.html
/usr/lib64/R/library/Rsamtools/html/scanBcf.html
/usr/lib64/R/library/Rsamtools/html/scanFa.html
/usr/lib64/R/library/Rsamtools/html/scanTabix.html
/usr/lib64/R/library/Rsamtools/html/seqnamesTabix.html
/usr/lib64/R/library/Rsamtools/html/sequenceLayer.html
/usr/lib64/R/library/Rsamtools/html/stackStringsFromBam.html
/usr/lib64/R/library/Rsamtools/html/zip.html
/usr/lib64/R/library/Rsamtools/include/
/usr/lib64/R/library/Rsamtools/include/samtools/bam.h
/usr/lib64/R/library/Rsamtools/include/samtools/bam_endian.h
/usr/lib64/R/library/Rsamtools/include/samtools/bgzf.h
/usr/lib64/R/library/Rsamtools/include/samtools/faidx.h
/usr/lib64/R/library/Rsamtools/include/samtools/kaln.h
/usr/lib64/R/library/Rsamtools/include/samtools/khash.h
/usr/lib64/R/library/Rsamtools/include/samtools/knetfile.h
/usr/lib64/R/library/Rsamtools/include/samtools/kprobaln.h
/usr/lib64/R/library/Rsamtools/include/samtools/kseq.h
/usr/lib64/R/library/Rsamtools/include/samtools/ksort.h
/usr/lib64/R/library/Rsamtools/include/samtools/kstring.h
/usr/lib64/R/library/Rsamtools/include/samtools/razf.h
/usr/lib64/R/library/Rsamtools/include/samtools/sam.h
/usr/lib64/R/library/Rsamtools/include/samtools/sam_header.h
/usr/lib64/R/library/Rsamtools/include/samtools/bcftools/bcf.h
/usr/lib64/R/library/Rsamtools/include/samtools/bcftools/prob1.h
/usr/lib64/R/library/Rsamtools/include/tabix/bgzf.h
/usr/lib64/R/library/Rsamtools/include/tabix/knetfile.h
/usr/lib64/R/library/Rsamtools/include/tabix/kstring.h
/usr/lib64/R/library/Rsamtools/include/tabix/tabix.h
/usr/lib64/R/library/Rsamtools/libs/Rsamtools.so
/usr/lib64/R/library/Rsamtools/scripts/BamViews-1000g.R
/usr/lib64/R/library/Rsamtools/scripts/features.R
/usr/lib64/R/library/Rsamtools/scripts/readAligned_prototype.R
/usr/lib64/R/library/Rsamtools/scripts/remote_test.R
/usr/lib64/R/library/Rsamtools/scripts/update-samtools.sh
/usr/lib64/R/library/Rsamtools/unitTests/test_BamFile.R
/usr/lib64/R/library/Rsamtools/unitTests/test_BamSampler.R
/usr/lib64/R/library/Rsamtools/unitTests/test_BamViews.R
/usr/lib64/R/library/Rsamtools/unitTests/test_BcfFile.R
/usr/lib64/R/library/Rsamtools/unitTests/test_FaFile.R
/usr/lib64/R/library/Rsamtools/unitTests/test_TabixFile.R
/usr/lib64/R/library/Rsamtools/unitTests/test_applyPileups.R
/usr/lib64/R/library/Rsamtools/unitTests/test_asBam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_bam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_bam_count.R
/usr/lib64/R/library/Rsamtools/unitTests/test_bam_header.R
/usr/lib64/R/library/Rsamtools/unitTests/test_compression.R
/usr/lib64/R/library/Rsamtools/unitTests/test_readAligned.R
/usr/lib64/R/library/Rsamtools/unitTests/test_readGAlignmentPairsFromBam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_readGAlignmentsFromBam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_readGAlignmentsListFromBam.R
/usr/lib64/R/library/Rsamtools/unitTests/test_readPileup.R
/usr/lib64/R/library/Rsamtools/unitTests/test_scanBamFlag.R
/usr/lib64/R/library/Rsamtools/unitTests/test_sortBam_test.R
/usr/lib64/R/library/Rsamtools/unitTests/test_utilities.R
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1.sam.gz
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_noindex.bam
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_shuf1000.bam
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_shuf1000.bam.bai
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_unsort.bam
/usr/lib64/R/library/Rsamtools/unitTests/cases/ex1_zero_index.bam.bai
/usr/lib64/R/library/Rsamtools/unitTests/cases/no_SAMPLE_header.vcf
/usr/lib64/R/library/Rsamtools/unitTests/cases/no_header_line.vcf
/usr/lib64/R/library/Rsamtools/unitTests/cases/pileup-no-stars.txt
/usr/lib64/R/library/Rsamtools/unitTests/cases/plp_refskip.bam
/usr/lib64/R/library/Rsamtools/unitTests/cases/plp_refskip.bam.bai
/usr/lib64/R/library/Rsamtools/usretc/Rsamtools.mk
/usr/lib64/R/library/Rsamtools/usrlib/libbam.a
/usr/lib64/R/library/Rsamtools/usrlib/libbcf.a
/usr/lib64/R/library/Rsamtools/usrlib/libtabix.a

Changelog

2014-07-25 - Denis Silakov <denis.silakov@rosalab.ru> 1.14.3-2
+ Revision: eb37453
- MassBuild#464: Increase release tag

See Also

Package Description
R-Rsymphony-0.1.17-2-rosa2014.1.x86_64.rpm Symphony in R
R-Rvmmin-2013.11.11-2-rosa2014.1.noarch.rpm Variable metric nonlinear function minimization with bounds constraints
R-SNPlocs.Hsapiens.dbSNP.20100427-0.99.6-3-rosa2014.1.x86_64.rpm SNP locations for Homo sapiens (dbSNP BUILD 131)
R-SRAdb-1.16.0-2-rosa2014.1.x86_64.rpm A compilation of metadata from NCBI SRA and tools
R-ShortRead-1.20.0-2-rosa2014.1.x86_64.rpm Classes and methods for high-throughput short-read sequencing data
R-Sleuth2-1.0.7-2-rosa2014.1.x86_64.rpm Data sets from Ramsey and Schafer's "Statistical Sleuth (2nd ed)"
R-Snowball-0.0.10-2-rosa2014.1.x86_64.rpm Snowball Stemmers
R-SnowballC-0.5-2-rosa2014.1.x86_64.rpm Snowball stemmers based on the C libstemmer UTF-8 library
R-SparseM-1.03-2-rosa2014.1.x86_64.rpm Sparse Linear Algebra
R-TH.data-1.0.3-2-rosa2014.1.noarch.rpm TH's Data Archive
R-TSA-1.01-2-rosa2014.1.noarch.rpm Time Series Analysis
R-TSP-1.0.8-3-rosa2014.1.x86_64.rpm Traveling Salesperson Problem (TSP)
R-TeachingDemos-2.9-2-rosa2014.1.noarch.rpm Demonstrations for teaching and learning
R-TxDb.Hsapiens.UCSC.hg19.knownGene-2.10.1-2-rosa2014.1.noarch.rpm Annotation package for the Hsapiens_UCSC_hg19_knownGene_TxDb object
R-TxDb.Rnorvegicus.UCSC.rn5.refGene-2.10.1-2-rosa2014.1.noarch.rpm Annotation package for TranscriptDb object(s)
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