Author: Wei-Chen Chen, Karin S. Dorman, Ranjan Maitra
Description: Model Based Phylogenetic Clustering
Packaged: Thu Jan 28 18:45:25 2010; snoweye

Description: Phylogenetic clustering (phyloclustering) is an evolutionary
Continuous Time Markov Chain model-based approach to identify
population structure from molecular data without assuming
linkage equilibrium. It provides a convenient implementation of
phyloclustering for DNA and SNP data, capable of clustering individuals
into subpopulations and identifying molecular sequences representative
of those subpopulations. It is designed in C for performance,
interfaced with R for visualization, and incorporates other popular
open source software, ms, seq-gen and Hap-Clustering for simulating
data and additional analyses. See the phyclust website for more

Author: Wei-Chen Chen and Karin S. Dorman
Description: Phylogenetic clustering (phyloclustering) is an
evolutionary Continuous Time Markov Chain model-based approach
to identify population structure from molecular data without
assuming linkage equilibrium. The package phyclust (Chen 2011)
provides a convenient implementation of phyloclustering for DNA
and SNP data, capable of clustering individuals into
subpopulations and identifying molecular sequences
representative of those subpopulations. It is designed in C for
performance, interfaced with R for visualization, and
incorporates other popular open source programs including ms
(Hudson 2002), seq-gen (Rambaut and Grassly 1997),
Hap-Clustering (Tzeng 2005) and PAML baseml (Yang 1997, 2007),
for simulating data, additional analyses, and searching the
best tree.  See the phyclust website for more information,

Package: phyclust
Version: 0.1-13
Date: 2012-12-23
Title: Phylogenetic Clustering (Phyloclustering)
Authors@R: c(person("Wei-Chen", "Chen", role = c("aut", "cre"), email =
"wccsnow@gmail.com"), person("Karin", "Dorman", role = "aut"))
Depends: R (>= 2.14.0), ape
LazyLoad: yes
LazyData: yes
SystemRequirements: GNU make
Description: Phylogenetic clustering (phyloclustering) is an
evolutionary Continuous Time Markov Chain model-based approach
to identify population structure from molecular data without
assuming linkage equilibrium. The package phyclust (Chen 2011)
provides a convenient implementation of phyloclustering for DNA
and SNP data, capable of clustering individuals into
subpopulations and identifying molecular sequences
representative of those subpopulations. It is designed in C for
performance, interfaced with R for visualization, and
incorporates other popular open source programs including ms
(Hudson 2002), seq-gen (Rambaut and Grassly 1997),
Hap-Clustering (Tzeng 2005) and PAML baseml (Yang 1997, 2007),
for simulating data, additional analyses, and searching the
best tree.  See the phyclust website for more information,
documentations and examples.
License: GPL (>= 2)
URL: http://thirteen-01.stat.iastate.edu/snoweye/phyclust/
Packaged: 2012-12-26 02:45:17 UTC; snoweye
Author: Wei-Chen Chen [aut, cre], Karin Dorman [aut]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Repository: CRAN
Date/Publication: 2012-12-26 09:25:14