- to
Estimate Maximum-Likelihood Phylogenies: ****essing the
Performance of
PhyML 3.0".
Systematic Biology. 59 (3): 307–321. doi:10.1093/sysbio/syq010. hdl:20...
- to be used from
within Biopython.
These wrappers include BLAST, Clustal,
PhyML,
EMBOSS and SAMtools.
Users can
subclass a
generic wrapper class to add...
- ProbCons,
FastAligner (region-align+auto-reference) arb-parsimony & -NJ, RAx
ML,
PHYML, Phylip, FastTree2,
MrBayes Edits huge
alignments and trees. Supports...
-
algorithm Build (using
integrated PHYLIP neighbor joining, MrBayes, or
PhyML Maximum Likelihood) and edit
phylogenetic trees Combine various algorithms...
- for
phylogeny reconstruction will
depend on
whether a
Maximum Likelihood (
ML),
Maximum Parsimony (MP), or
Bayesian Inference (BI)
method is appropriate...
- all of them from the
PHYLIP package, and for the
maximum likelihood:
PhyML, RAx
ML, DNAML, DNAMLK,
PROML and PROMLK, the four
latter methods are from the...
-
M.L. (2008). "Fifty
Years of
Condensed Matter Physics".
Physical Review Letters. 101 (5): 25001–25006. Bibcode:2008PhRvL.101y0001C. doi:10.1103/
PhysRevLett...
-
being extended towards sciences other than mathematics. The
first result is
PhysML, an
OMDoc variant extended towards physics. For a
better integration with...
- new
languages or
language extensions (Generic
Modeling Environment and Cy
PhyML) that
encapsulated sufficient complexity to
compile a
component library...
-
Suite and the
Adaptive Vehicle Make program. The main
language it uses is Cy
PhyML. hierarchy,
multiple aspects, sets, references, and
explicit constraints...
