slackbuilds_ponce/academic/PhyML
Petar Petrov ec514e32c4 Multiple: update email, year and slack-desc
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
2016-01-17 09:40:16 +07:00
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20131112.patch
PhyML.info Multiple: update email, year and slack-desc 2016-01-17 09:40:16 +07:00
PhyML.SlackBuild Multiple: update email, year and slack-desc 2016-01-17 09:40:16 +07:00
README
References
slack-desc Multiple: update email, year and slack-desc 2016-01-17 09:40:16 +07:00

PhyML is a software that estimates maximum likelihood phylogenies
from alignments of nucleotide or amino acid sequences. It provides a
wide range of options that were designed to facilitate standard
phylogenetic analyses. The main strengths of PhyML lies in the large
number of substitution models coupled to various options to search
the space of phylogenetic tree topologies, going from very fast and
efficient methods to slower but generally more accurate approaches.
It also implements two methods to evaluate branch supports in a sound
statistical framework (the non-parametric bootstrap and the
approximate likelihood ratio test).

The script also builds the additional program PhyTime.

For details and citation
New Algorithms and Methods to Estimate Maximum-Likelihood
Phylogenies: Assessing the Performance of PhyML 3.0. Guindon S.,
Dufayard J.F., Lefort V., Anisimova M., Hordijk W., Gascuel O.
Systematic Biology, 59(3):307-21, 2010.