Package: polysat
Version: 1.2-0
Date: 2010-04-30
Title: Tools for Polyploid Microsatellite Analysis
Author: Lindsay V. Clark <lvclark@ucdavis.edu>
Maintainer: Lindsay V. Clark <lvclark@ucdavis.edu>
Depends: combinat, methods
Suggests: ade4, adegenet
Description: polysat is a collection of tools to handle microsatellite
data of any ploidy (and samples of mixed ploidy) where allele
copy number is not known in partially heterozygous genotypes.
It can import and export data in ABI GeneMapper, Structure,
ATetra, Tetrasat/Tetra, GenoDive, SPAGeDi, POPDIST, and binary
presence/absence formats.  It can calculate pairwise distances
between individuals using a stepwise mutation model or infinite
alleles model, with or without taking ploidies and allele
frequencies into account.  These distances can be used for the
calculation of clonal diversity statistics or used for further
analysis in R. polysat can also assist the user in estimating
the ploidy of samples, and lastly it can estimate allele
frequencies in populations, calculate pairwise Fst values based
on those frequencies, and export allele frequencies to SPAGeDi
and adegenet.
License: GPL (>= 2)
URL: http://openwetware.org/wiki/Polysat
Packaged: 2011-05-01 02:30:41 UTC; lvclark
Repository: CRAN
Date/Publication: 2011-05-01 07:00:48

Package: polysat
Version: 1.2-1
Date: 2010-06-16
Title: Tools for Polyploid Microsatellite Analysis
Author: Lindsay V. Clark <lvclark@ucdavis.edu>
Maintainer: Lindsay V. Clark <lvclark@ucdavis.edu>
Depends: combinat, methods
Suggests: ade4, adegenet
Description: polysat is a collection of tools to handle microsatellite
data of any ploidy (and samples of mixed ploidy) where allele
copy number is not known in partially heterozygous genotypes.
It can import and export data in ABI GeneMapper, Structure,
ATetra, Tetrasat/Tetra, GenoDive, SPAGeDi, POPDIST, and binary
presence/absence formats.  It can calculate pairwise distances
between individuals using a stepwise mutation model or infinite
alleles model, with or without taking ploidies and allele
frequencies into account.  These distances can be used for the
calculation of clonal diversity statistics or used for further
analysis in R.  polysat can also assist the user in estimating
the ploidy of samples, and lastly it can estimate allele
frequencies in populations, calculate pairwise Fst values based
on those frequencies, and export allele frequencies to SPAGeDi
and adegenet.
License: GPL (>= 2)
URL: http://openwetware.org/wiki/Polysat
Packaged: 2012-01-15 10:18:06 UTC; ripley
Repository: CRAN
Date/Publication: 2012-01-15 10:27:33