{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,20]],"date-time":"2025-10-20T18:45:45Z","timestamp":1760985945374,"version":"3.37.3"},"reference-count":27,"publisher":"Oxford University Press (OUP)","issue":"18","license":[{"start":{"date-parts":[[2020,7,1]],"date-time":"2020-07-01T00:00:00Z","timestamp":1593561600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R01 [GM117590]"],"award-info":[{"award-number":["R01 [GM117590]"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>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.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>PRANC is written in C++ and freely available at github.com\/anastasiiakim\/PRANC.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa605","type":"journal-article","created":{"date-parts":[[2020,6,23]],"date-time":"2020-06-23T11:44:50Z","timestamp":1592912690000},"page":"4819-4821","source":"Crossref","is-referenced-by-count":7,"title":["PRANC: ML species tree estimation from the ranked gene trees under coalescence"],"prefix":"10.1093","volume":"36","author":[{"given":"Anastasiia","family":"Kim","sequence":"first","affiliation":[{"name":"Department of Mathematics and Statistics, University of New Mexico , Albuquerque, NM 87106, USA"}]},{"given":"James H","family":"Degnan","sequence":"additional","affiliation":[{"name":"Department of Mathematics and Statistics, University of New Mexico , Albuquerque, NM 87106, USA"}]}],"member":"286","published-online":{"date-parts":[[2020,7,1]]},"reference":[{"volume-title":"Algorithms for Minimization without Derivatives","year":"1973","author":"Brent","key":"2023062213573952000_btaa605-B1"},{"key":"2023062213573952000_btaa605-B2","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1090\/dimacs\/061\/11","article-title":"A classification of consensus methods for phylogenetics","volume":"61","author":"Bryant","year":"2003","journal-title":"DIMACS Ser. 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