gsrc: Genome Structure Rearrangement Calling in Genomes with High Synteny

Pipeline to read and analyze raw SNP array data. The data is preprocessed and normalized. Genotypes and CNVs are called. Synteny blocks are calculated and translocations detected. The results can be plotted with special functions.

Version: 1.1
Imports: illuminaio, limma, preprocessCore, R6, utils, grDevices, graphics, dbscan, Ckmeans.1d.dp, DNAcopy, openxlsx
Suggests: testthat, knitr, rmarkdown, brassicaData, mixtools, devtools, KernSmooth
Published: 2016-10-17
Author: Fabian Grandke [cre, aut], Birgit Samans [aut]
Maintainer: Fabian Grandke <grafabian at gmail.com>
BugReports: http://github.com/grafab/gsrc/issues
License: GPL-3
URL: http://github.com/grafab/gsrc
NeedsCompilation: no
Citation: gsrc citation info
Materials: NEWS
CRAN checks: gsrc results

Downloads:

Reference manual: gsrc.pdf
Vignettes: Introduction
Synteny Block Calculation
Package source: gsrc_1.1.tar.gz
Windows binaries: r-devel: gsrc_1.1.zip, r-release: gsrc_1.1.zip, r-oldrel: gsrc_1.1.zip
OS X El Capitan binaries: r-release: not available
OS X Mavericks binaries: r-oldrel: gsrc_1.1.tgz
Old sources: gsrc archive

Linking:

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