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

@article{citeulike:2800014, abstract = {SUMMARY: 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 CONTACT: oeulenst@cs.iastate.edu.}, address = {Department of Computer Science, Iowa State University, Ames 50011, IA, USA.}, author = {Wehe, Andr\'{e} and Bansal, Mukul S S. and Burleigh, J Gordon G. and Eulenstein, Oliver }, citeulike-article-id = {2800014}, issn = {1460-2059}, journal = {Bioinformatics (Oxford, England)}, keywords = {duplication, gene\_duplication, gene\_tree, methods, phylogenetics}, month = {May}, posted-at = {2008-05-14 22:09:21}, priority = {2}, title = {DupTree: A program for large-scale phylogenetic analyses using gene tree parsimony.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/18474508}, year = {2008} }

TY - JOUR ID - citeulike:2800014 L3 - citeulike-article-id:2800014 TI - DupTree: A program for large-scale phylogenetic analyses using gene tree parsimony. JF - Bioinformatics (Oxford, England) AD - Department of Computer Science, Iowa State University, Ames 50011, IA, USA. SN - 1460-2059 N2 - SUMMARY: 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 CONTACT: oeulenst@cs.iastate.edu. KW - duplication KW - gene_duplication KW - gene_tree KW - methods KW - phylogenetics AU - Wehe, André AU - Bansal, Mukul S AU - Burleigh, J Gordon AU - Eulenstein, Oliver PY - 2008/05/12/ UR - http://view.ncbi.nlm.nih.gov/pubmed/18474508 ER -