plotClusterLeaves

<p>is an object of ipADMIXTURE class.</p>

<p>plotClusterLeaves is function that plots clusters in a form of treemap plot.
Subsquares represent clusters. Each subsquare contains cluster label (ID),
number of members (N), and a maximum of manitude-difference of admixture ratios (md).
A size of each subsquare represents a ratio of member numbers compared to other clusters.
A color represents an md value of cluster.</p>

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>.

plotClusterLeaves: plotClusterLeaves

Description

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Examples