Module Trees
source code
Tree class to handle phylogenetic trees.
Provides a set of methods to read and write newick-format tree descriptions,
get information about trees (monphyly of taxon sets, congruence between trees,
common ancestors,...) and to manipulate trees (reroot trees, split terminal
nodes).
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TreeError
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NodeData
Stores tree-relevant data associated with nodes (e.g.
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Tree
Represents a tree using a chain of nodes with on predecessor (=ancestor)
and multiple successors (=subclades).
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consensus(trees,
threshold=0.5,
outgroup=None)
Compute a majority rule consensus tree of all clades with relative frequency>=threshold from a list of trees. |
source code
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PRECISION_BRANCHLENGTH = 6
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PRECISION_SUPPORT = 6
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NODECOMMENT_START = '[&' |
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NODECOMMENT_END = ']' |