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ProPIP: Progressive Multiple Sequence Alignment with Poisson Indel Process

ProPIP is a Multiple Sequence Alignment inference software that implements the Poisson Indel Process (Bouchard-Côté & Jordan, PNAS, 2013) in the Maximum Likelihood framework.


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You can find tutorial, examples and guides on our Wikipages


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 * ProPIP is a computer program whose purpose is to infer Multiple Sequence 
 * Alignment under an indel-aware model for nucleotide and protein datasets.
 *
 * This software is based and extends the following libraries:
 *
 * - the Bio++ libraries
 *   developed by the Bio++ Development Team <http://biopp.univ-montp2.fr>
 *
 * - The Tree Search Heuristic Library (TSH-LIB)
 *   developed by L. Gatti & M. Maiolo <http://bit.ly/tsh-lib>
 *
 * ProPIP 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.
 *
 * ProPIP is a free software: you can redistribute it and/or modify it
 * under the terms of the GNU Lesser General Public License as published
 * by the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 *
 * You should have received a copy of the GNU Lesser General Public
 * License along with ProPIP. If not, see <http://www.gnu.org/licenses/>.

Reference

[1] Alexandre Bouchard-Côté and Michael I. Jordan. Evolutionary inference via the Poisson Indel Process.Proc. Natl. Acad. Sci. U.S.A., 110(4):1160, 2013.


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