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Updated: May 2, 2026

A Practical Guide to Phylogenetics for Nonexperts
Published on: February 5, 2014
POPTREEW: web version of POPTREE for constructing population trees from allele frequency data and computing some
Naoko Takezaki1, Masatoshi Nei2, Koichiro Tamura3
1Life Science Research Center, Kagawa University, Kagawa, Japan takezaki@med.kagawa-u.ac.jp.
Abstract:
POPTREE software, including the command line (POPTREE) and the Windows (POPTREE2) versions, is available to perform evolutionary analyses of allele frequency data, computing distance measures for constructing population trees and average heterozygosity (H) (measure of genetic diversity within populations) and G(ST) (measure of genetic differentiation among subdivided populations). We have now developed a web version POPTREEW (http://www.med.kagawa-u.ac.jp/∼genomelb/takezaki/poptreew/) to provide cross-platform access to all POPTREE functions including interactive tree editing. Furthermore, new POPTREE software (POPTREE, POPTREE2, and POPTREEW) computes standardized G(ST) and Jost's D, which may be appropriate for data with high variability, and accepts genotype data in GENEPOP format as an input.
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