2012-06-28 22:30:58 +02:00
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PhyML is a software that estimates maximum likelihood phylogenies
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from alignments of nucleotide or amino acid sequences. It provides a
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wide range of options that were designed to facilitate standard
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phylogenetic analyses. The main strengths of PhyML lies in the large
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number of substitution models coupled to various options to search
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the space of phylogenetic tree topologies, going from very fast and
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efficient methods to slower but generally more accurate approaches.
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It also implements two methods to evaluate branch supports in a sound
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statistical framework (the non-parametric bootstrap and the
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2011-09-27 12:28:20 +02:00
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approximate likelihood ratio test).
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2011-09-03 03:16:21 +02:00
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2013-12-14 01:24:12 +01:00
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The script also builds the additional program PhyTime.
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2011-09-03 03:16:21 +02:00
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For details and citation
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2012-06-28 22:30:58 +02:00
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New Algorithms and Methods to Estimate Maximum-Likelihood
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Phylogenies: Assessing the Performance of PhyML 3.0. Guindon S.,
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Dufayard J.F., Lefort V., Anisimova M., Hordijk W., Gascuel O.
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2012-05-22 02:00:14 +02:00
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Systematic Biology, 59(3):307-21, 2010.
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