Package Bio :: Package Phylo :: Module TreeConstruction
[hide private]
[frames] | no frames]

Module TreeConstruction

source code

Classes and methods for tree construction
Classes [hide private]
  _Matrix
A base class for distance matrix or scoring matrix that accepts a list of names and a lower triangular matrix.
  _DistanceMatrix
algorithms.
  DistanceCalculator
Class to calculate the distance matrix from a DNA or Protein Multiple Sequence Alignment(MSA) and the given name of the substitution model.
  TreeConstructor
Base class for all tree constructor.
  DistanceTreeConstructor
Distance based tree constructor.
  Scorer
Base class for all tree scoring methods
  TreeSearcher
Base class for all tree searching methods
  NNITreeSearcher
algorithm.
  ParsimonyScorer
Parsimony scorer with a scoring matrix.
  ParsimonyTreeConstructor
Parsimony tree constructor.
Functions [hide private]
 
_is_numeric(x) source code
Variables [hide private]
  __package__ = 'Bio.Phylo'