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Heinz Wiesinger
63daf9f79a
All: Support $PRINT_PACKAGE_NAME env var
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3 rokov pred | |
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| .. | ||
| PhyML.SlackBuild | 63daf9f79a All: Support $PRINT_PACKAGE_NAME env var | 3 rokov pred |
| PhyML.info | 789435221b academic/PhyMLR: Updated for version 3.3.20200621. | 4 rokov pred |
| README | 0a3c565536 academic/PhyML: Updated for version 3.3.20170530. | 7 rokov pred |
| References | ca3a131931 academic/PhyML: Updated for version 20131112. | 11 rokov pred |
| slack-desc | 0a3c565536 academic/PhyML: Updated for version 3.3.20170530. | 7 rokov pred |
README
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).
This also builds MPI (using multiple processors) version of PhyML, which
requires 'openmpi'. Other additional programs built by the script are
Phyrex and PhyTime. If you do not want them to be built in the package,
check the SlackBuild script.
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.
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).
This also builds MPI (using multiple processors) version of PhyML, which
requires 'openmpi'. Other additional programs built by the script are
Phyrex and PhyTime. If you do not want them to be built in the package,
check the SlackBuild script.
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.