The PAL Project
Keywords: PAL, phylogenetic analysis library, molecular phylogenetics, molecular evolution, phylogeny, tree reconstruction, maximum likelihood

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| PAL: Phylogenetic Analysis Library A Java library for molecular evolution and phylogenetics Version 1.5 (January 15, 2004) The PAL project (http://www.cebl.auckland.ac.nz/pal-project) is a collaborative effort dedicated to provide a high quality Java library for use in molecular evolution and phylogenetics. This package may be distributed under the terms of the GNU Lesser General Public License Copyright (c) 1999-2004 PAL Development Core Team. Overview: The PAL project is a collaborative effort to provide a high quality Java library for use in molecular evolution and phylogenetics. Updates of PAL are released in regular intervals. At present (version 1.4) PAL consists of approximately 200 public classes/interfaces in 16 packages with a total of more than 35,000 lines of Java code. Please refer to the API documentation (available in source archives) for a detailed description of all classes and methods available, and to the release history for an overview of the development history of PAL. Please feel free to use PAL or parts of it in your own programs, the terms and conditions for copying, distribution and modification of the GNU Lesser General Public License apply. (Note that previous versions of PAL were licensed under the GNU GPL rather the GNU LGPL.) Contributing code to PAL is greatly encouraged, please read the following guidelines. If you wish to cite PAL please use Drummond, A., and K. Strimmer. 2001. PAL: An object-oriented programming library for molecular evolution and phylogenetics. Bioinformatics 17: 662-663. This paper provides an overview over PAL version 1.1.