iGTP is a program designed to help biologists infer species phylogenies from gene phylogenies, using the gene tree parsimony (GTP) approach. The program implements efficient
heuristics which allows it to handle large-scale species tree inference under the duplication, duplication-loss, and deep coalescence reconciliation costs.
iGTP provides the following features:
iGTP is designed as a platform independent program. It has been successfully tested on Mac OS X (10.4.11, 10.5.8), Microsoft Windows (XP, Vista, and 7), and Linux virtual box. If you use iGTP please include the following citation: Ruchi Chaudhary, Mukul S. Bansal, André Wehe, David Fernández-Baca, Oliver Eulenstein, "iGTP: A software package for large-scale gene tree parsimony analysis", BMC Bioinformatics 2010, 11:574.
Acknowledgements:We thank Dr. Mike Sanderson for helping in enhancing Paloverde, and Dr. J. Gordon Burleigh and Minh Anh Nguyen for their extensive testing of the software.
This work was supported in part by the NSF AToL program through grants DEB-0334832 and DEB-0829674. MSB was supported in part by a postdoctoral fellowship from the Edmond J. Safra Bioinformatics program at Tel-Aviv university.