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New Methods to Calculate Concordance Factors for Phylogenomic Datasets

Minh, Bui Quang; Hahn, Matthew W.; Lanfear, Robert

Description

We implement two measures for quantifying genealogical concordance in phylogenomic data sets: the gene concordance factor (gCF) and the novel site concordance factor (sCF). For every branch of a reference tree, gCF is defined as the percentage of “decisive” gene trees containing that branch. This measure is already in wide usage, but here we introduce a package that calculates it while accounting for variable taxon coverage among gene trees. sCF is a new measure defined as the percentage of...[Show more]

CollectionsANU Research Publications
Date published: 2020
Type: Journal article
URI: http://hdl.handle.net/1885/223648
Source: Molecular Biology and Evolution
DOI: 10.1093/molbev/msaa106
Access Rights: Open Access

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