To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("ShortRead")
In most cases, you don't need to download the package archive at all.
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This package is for version 2.9 of Bioconductor; for the stable, up-to-date release version, see ShortRead.
Bioconductor version: 2.9
Base classes, functions, and methods for representation of high-throughput, short-read sequencing data.
Author: Martin Morgan, Michael Lawrence, Simon Anders
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
Citation (from within R,
enter citation("ShortRead")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("ShortRead")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ShortRead")
Overview.pdf | ||
ShortRead_and_HilbertVis.pdf | ||
Reference Manual |
biocViews | DataImport, HighThroughputSequencing, QualityControl, Sequencing, Software |
Version | 1.12.4 |
In Bioconductor since | BioC 2.3 (R-2.8) (7.5 years) |
License | Artistic-2.0 |
Depends | methods, IRanges(>= 1.11.2), GenomicRanges, Biostrings(>= 2.19.0), lattice, Rsamtools(>= 1.5.75), latticeExtra |
Imports | IRanges, GenomicRanges, Biostrings, Biobase, hwriter, Rsamtools, zlibbioc, lattice |
LinkingTo | IRanges, Biostrings |
Suggests | biomaRt, RUnit, GenomicFeatures, yeastNagalakshmi |
SystemRequirements | |
Enhances | Rmpi, parallel |
URL | |
Depends On Me | chipseq, ChIPseqR, EatonEtAlChIPseq, EDASeq, girafe, nucleR, OTUbase, r3Cseq, Rolexa, segmentSeq |
Imports Me | ArrayExpressHTS, chipseq, ChIPseqR, ChIPsim, nucleR, OTUbase, R453Plus1Toolbox, Rolexa |
Suggests Me | CSAR, Genominator, PICS, R453Plus1Toolbox, Repitools, Rsamtools, yeastRNASeq |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | ShortRead_1.12.4.tar.gz |
Windows Binary | ShortRead_1.12.4.zip (32- & 64-bit) |
Mac OS X 10.6 (Snow Leopard) | |
Mac OS X 10.9 (Mavericks) | |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/ShortRead/tree/release-2.9 |
Package Short Url | http://bioconductor.org/packages/ShortRead/ |
Package Downloads Report | Download Stats |
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