SNPtools: Accessing, subsetting and plotting mouse SNPs

This package queries the SNPs data sets and makes plots of genes and SNPs. This package allows users to access these data sets once they have been compiled into one file and indexed with Tabix (http://samtools.sourceforge.net/tabix.shtml). There are functions to retrieve SNPs, subset them for specific strains, obtain only SNPs that are polymorphic for a subset of strains, plot SNPs and look for certain allele patterns in SNPs. We have also added functions to access indels and structural variants.

Version: 1.1
Depends: R (≥ 2.10), IRanges, GenomicRanges, Biostrings, Rsamtools
Published: 2013-07-03
Author: Daniel Gatti
Maintainer: Daniel Gatti <Dan.Gatti at jax.org>
License: GPL-3
Copyright: The Jackson Laboratory, 2013
NeedsCompilation: no
CRAN checks: SNPtools results

Downloads:

Reference manual: SNPtools.pdf
Vignettes: SNP Retrieval and Manipulation
Package source: SNPtools_1.1.tar.gz
Windows binaries: r-devel: SNPtools_1.1.zip, r-release: SNPtools_1.1.zip, r-oldrel: SNPtools_1.1.zip
OS X El Capitan binaries: r-release: not available
OS X Mavericks binaries: r-oldrel: SNPtools_1.1.tgz
Old sources: SNPtools archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=SNPtools to link to this page.