PRANC: ML species tree estimation from the ranked gene trees under coalescence | Zendy

Anastasiia Kim | Zendy; J. H. Degnan | Zendy

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PRANC: ML species tree estimation from the ranked gene trees under coalescence

Author(s) -

Anastasiia Kim,

J. H. Degnan

Publication year - 2020

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btaa605

Subject(s) - coalescent theory , tree (set theory) , network topology , computer science , coalescence (physics) , statistics , mathematics , gene , phylogenetic tree , biology , computational biology , data mining , combinatorics , genetics , astrobiology , operating system

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.

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