ipADMIXTURE: Iterative Pruning Population Admixture Inference Framework

A data clustering package based on admixture ratios (Q matrix) of population structure. The framework is based on iterative Pruning procedure that performs data clustering by splitting a given population into subclusters until meeting the condition of stopping criteria the same as ipPCA, iNJclust, and IPCAPS frameworks. The package also provides a function to retrieve phylogeny tree that construct a neighbor-joining tree based on a similar matrix between clusters. By given multiple Q matrices with varying a number of ancestors (K), the framework define a similar value between clusters i,j as a minimum number K* that makes majority of members of two clusters are in the different clusters. This K* reflexes a minimum number of ancestors we need to splitting cluster i,j into different clusters if we assign K* clusters based on maximum admixture ratio of individuals. The publication of this package is at Chainarong Amornbunchornvej, Pongsakorn Wangkumhang, and Sissades Tongsima (2020) <doi:10.1101/2020.03.21.001206>.

Version:	0.1.0
Depends:	R (≥ 3.5.0)
Imports:	stats, treemap, ape
Suggests:	knitr, rmarkdown
Published:	2020-03-26
Author:	Chainarong Amornbunchornvej [aut, cre]
Maintainer:	Chainarong Amornbunchornvej <grandca at gmail.com>
BugReports:	https://github.com/DarkEyes/ipADMIXTURE/issues
License:	GPL-3
URL:	https://github.com/DarkEyes/ipADMIXTURE
NeedsCompilation:	no
Language:	en-US
Citation:	ipADMIXTURE citation info
Materials:	README NEWS
CRAN checks:	ipADMIXTURE results

Downloads:

Linking:

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