Package Bio :: Package Phylo :: Package Applications :: Module _Phyml :: Class PhymlCommandline
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Class PhymlCommandline

source code

                     object --+    
                              |    
Application.AbstractCommandline --+
                                  |
                                 PhymlCommandline

Command-line wrapper for the tree inference program PhyML.

Homepage: http://www.atgc-montpellier.fr/phyml

Citations:

Guindon S, Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology, 2003 Oct;52(5):696-704. PubMed PMID: 14530136.

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

Instance Methods [hide private]
 
__init__(self, cmd='phyml', **kwargs)
Create a new instance of a command line wrapper object.
source code

Inherited from Application.AbstractCommandline: __call__, __repr__, __setattr__, __str__, set_parameter

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __sizeof__, __subclasshook__

Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(self, cmd='phyml', **kwargs)
(Constructor)

source code 
Create a new instance of a command line wrapper object.

Overrides: object.__init__
(inherited documentation)