目錄樹:
331a473f1a
11.0
12.0
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bedlam
bedlam-name-fixes
dive
erik
gitignore
libressl-gopher-test
master
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python-renames
rworkman
urchlay
user/aclemons/updates
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user/anddt/office/gnumeric
user/anddt/office/sigil
user/anddt/system/FontAwesome
user/anddt/system/conky
user/anddt/system/fakeroot
user/anddt/system/hplip-plugin
user/anddt/system/postgresql
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willysr
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Petar Petrov
08e0e1dd1b
academic/PhyML: Updated for version 3.3.20220408.
|
2 年之前 | |
|---|---|---|
| .. | ||
| PhyML.SlackBuild | 08e0e1dd1b academic/PhyML: Updated for version 3.3.20220408. | 2 年之前 |
| PhyML.info | 08e0e1dd1b academic/PhyML: Updated for version 3.3.20220408. | 2 年之前 |
| README | 0a3c565536 academic/PhyML: Updated for version 3.3.20170530. | 7 年之前 |
| References | ca3a131931 academic/PhyML: Updated for version 20131112. | 11 年之前 |
| slack-desc | 0a3c565536 academic/PhyML: Updated for version 3.3.20170530. | 7 年之前 |
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.