{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T00:28:10Z","timestamp":1773275290672,"version":"3.50.1"},"reference-count":19,"publisher":"Oxford University Press (OUP)","issue":"3","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015,2,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: MulRF is a platform-independent software package for phylogenetic analysis using multi-copy gene trees. It seeks the species tree that minimizes the Robinson\u2013Foulds (RF) distance to the input trees using a generalization of the RF distance to multi-labeled trees. The underlying generic tree distance measure and fast running time make MulRF useful for inferring phylogenies from large collections of gene trees, in which multiple evolutionary processes as well as phylogenetic error may contribute to gene tree discord. MulRF implements several features for customizing the species tree search and assessing the results, and it provides a user-friendly graphical user interface (GUI) with tree visualization. The species tree search is implemented in C++ and the GUI in Java Swing.<\/jats:p>\n               <jats:p>Availability: MulRF\u2019s executable as well as sample datasets and manual are available at http:\/\/genome.cs.iastate.edu\/CBL\/MulRF\/ , and the source code is available at https:\/\/github.com\/ruchiherself\/MulRFRepo .<\/jats:p>\n               <jats:p>Contact: \u00a0ruchic@ufl.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu648","type":"journal-article","created":{"date-parts":[[2014,10,2]],"date-time":"2014-10-02T06:07:10Z","timestamp":1412230030000},"page":"432-433","source":"Crossref","is-referenced-by-count":29,"title":["MulRF: a software package for phylogenetic analysis using multi-copy gene trees"],"prefix":"10.1093","volume":"31","author":[{"given":"Ruchi","family":"Chaudhary","sequence":"first","affiliation":[{"name":"1 Department of Biology, University of Florida, Gainesville, FL 32611 and 2 Department of Computer Science, Iowa State University, Ames, IA 50011, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"David","family":"Fern\u00e1ndez-Baca","sequence":"additional","affiliation":[{"name":"1 Department of Biology, University of Florida, Gainesville, FL 32611 and 2 Department of Computer Science, Iowa State University, Ames, IA 50011, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"John Gordon","family":"Burleigh","sequence":"additional","affiliation":[{"name":"1 Department of Biology, University of Florida, Gainesville, FL 32611 and 2 Department of Computer Science, Iowa State University, Ames, IA 50011, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2014,10,1]]},"reference":[{"key":"2023020116163804300_btu648-B1","doi-asserted-by":"crossref","first-page":"1575","DOI":"10.1093\/molbev\/msm107","article-title":"Bayesian estimation of concordance among gene trees","volume":"24","author":"An\u00e9","year":"2007","journal-title":"Mol. 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