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Collapse: Describing haplotypes from sequence alignments

© 1998-2006 David Posada

Current version is 1.2

COLLAPSE is a simple tool for collapsing sequences to haplotypes (unique sequences). It can read DNA sequence alignments in NEXUS or PHYLIP "sequential" format. The program indicates which sequences belong to which haplotype and generates an alignment in phylip format including the haplotypes.

Operative systems
Executables are provided for macintosh and windows.

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Before download this program, I ask users to register. This allows me to inform about bugs and updates in a more efficient way. Indeed, users will be able to unregister at any time, and email addresses will not be used for any purpose other than to inform about this program.

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Disclaimer: These programs are 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. These programs are 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.

Correspondence about this program should be addressed to David Posada at



This document last modified Friday April 17, 2009