SimRAD: Simulations to Predict the Number of RAD and GBS Loci

Provides a number of functions to simulate restriction enzyme digestion, library construction and fragments size selection to predict the number of loci expected from most of the Restriction site Associated DNA (RAD) and Genotyping By Sequencing (GBS) approaches. SimRAD estimates the number of loci expected from a particular genome depending on the protocol type and parameters allowing to assess feasibility, multiplexing capacity and the amount of sequencing required.

Version: 0.96
Depends: Biostrings, ShortRead, zlibbioc
Imports: stats, graphics
Suggests: seqinr
Published: 2016-01-06
Author: Olivier Lepais [aut, cre], Jason Weir [aut]
Maintainer: Olivier Lepais <olepais at st-pee.inra.fr>
License: GPL-2
NeedsCompilation: no
CRAN checks: SimRAD results

Downloads:

Reference manual: SimRAD.pdf
Package source: SimRAD_0.96.tar.gz
Windows binaries: r-devel: SimRAD_0.96.zip, r-release: SimRAD_0.96.zip, r-oldrel: SimRAD_0.96.zip
OS X El Capitan binaries: r-release: not available
OS X Mavericks binaries: r-oldrel: SimRAD_0.96.tgz
Old sources: SimRAD archive

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