Pfaat (pronounced Pea-fat) is a Java application that allows one to edit, analyze, and annotate multiple sequence alignments. Annotations are a key feature, as they provide a framework for further sequence, structural and phylogenetic analysis.





References

PFAAT version 2.0: a tool for editing, annotating, and analyzing multiple sequence alignments. Caffrey DR, Dana PH, Mathur V, Ocano M, Hong EJ, Wang YE, Somaroo S, Caffrey BE, Potluri S, Huang ES. 2007 Oct 11;8:381 PDF

Prediction of specificity-determining residues for small-molecule kinase inhibitors. Caffrey DR, Lunney EA, Moshinsky DJ. 2008 Nov 25;9:491 PDF

ATV: display and manipulation of annotated phylogenetic trees. Zmasek ZM, Eddy SR. 2001 Apr;17(4):383 PDF

Jmol: an open-source Java viewer for chemical structures in 3D. http://www.jmol.org/

 

Copyright © 2002 Neogenesis Drug Discovery and Pfizer, Inc. This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.