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Bioinformatics. 2008 Jul 1;24(13):1540-1. doi: 10.1093/bioinformatics/btn230. Epub 2008 May 12.

DupTree: a program for large-scale phylogenetic analyses using gene tree parsimony.

Author information

1
Department of Computer Science, Iowa State University, Ames, IA 50011, USA.

Abstract

DupTree is a new software program for inferring rooted species trees from collections of gene trees using the gene tree parsimony approach. The program implements a novel algorithm that significantly improves upon the run time of standard search heuristics for gene tree parsimony, and enables the first truly genome-scale phylogenetic analyses. In addition, DupTree allows users to examine alternate rootings and to weight the reconciliation costs for gene trees. DupTree is an open source project written in C++.

AVAILABILITY:

DupTree for Mac OS X, Windows, and Linux along with a sample dataset and an on-line manual are available at http://genome.cs.iastate.edu/CBL/DupTree

PMID:
18474508
DOI:
10.1093/bioinformatics/btn230
[Indexed for MEDLINE]

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