title: MulRF: a software package for phylogenetic analysis using multi-copy gene trees.
abstract: CONCLUSIONS
  MulRF is a platform-independent software package for phylogenetic analysis using multi-copy gene trees. It seeks the species tree that minimizes the Robinson-Foulds (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.
  
  
  BACKGROUND
  MulRF's 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.
  
  
  BACKGROUND
  ruchic@ufl.edu
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Biology, University of Florida, Gainesville, FL 32611 and Department of Computer Science, Iowa State University, Ames, IA 50011, USA.
authors.forename: Ruchi
authors.initials: R
authors.lastname: Chaudhary
authors.affiliation: Department of Biology, University of Florida, Gainesville, FL 32611 and Department of Computer Science, Iowa State University, Ames, IA 50011, USA.
authors.forename: David
authors.initials: D
authors.lastname: Fernández-Baca
authors.affiliation: Department of Biology, University of Florida, Gainesville, FL 32611 and Department of Computer Science, Iowa State University, Ames, IA 50011, USA.
authors.forename: John Gordon
authors.initials: JG
authors.lastname: Burleigh
mesh_terms: D000465:Algorithms; D003198:Computer Simulation; D019143:Evolution, Molecular; D018628:Gene Dosage / Q000235:genetics*; D006801:Humans; D010802:Phylogeny; D011381:Programming Languages; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software