human27pop_labels

datasets

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>.

Chainarong Amornbunchornvej

ipADMIXTURE

Iterative Pruning Population Admixture Inference Framework

human27pop_labels function

Labels of 27 human populations. :<dl class="dl-horizontal">
 <dt>human27pop_labels</dt><dd>It is a vector of labels of 544 individuals. There are 27 populations.</dd>
 ...
</dl>

Format

Labels of 27 human populations — human27pop_labels

Labels of 27 human populations. :<dl class='dl-horizontal'>
 <dt>human27pop_labels</dt><dd>It is a vector of labels of 544 individuals. There are 27 populations.</dd>
 ...
</dl>

human27pop_labels: Labels of 27 human populations

Description

Usage

Arguments

Format