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PRANC: ML species tree estimation from the ranked gene trees under coalescence
Anastasiia Kim1, James H Degnan1
1Department of Mathematics and Statistics, University of New Mexico, Albuquerque, NM 87106, USA.
Summary:
PRANC computes the Probabilities of RANked gene tree topologies under the multispecies coalescent. A ranked gene tree is a gene tree accounting for the temporal ordering of internal nodes. PRANC can also estimate the maximum likelihood (ML) species tree from a sample of ranked or unranked gene tree topologies. It estimates the ML tree with estimated branch lengths in coalescent units.
Availability And Implementation:
PRANC is written in C++ and freely available at github.com/anastasiiakim/PRANC.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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