biopython v1.71.0 Bio.Phylo.NeXMLIO.Parser
Parse a NeXML tree given a file handle.
Based on the parser in Bio.Nexus.Trees.
Link to this section Summary
Functions
Initialize parameters for NeXML file parser
Traverse the tree creating a nested clade structure
Add annotations for the NeXML parser
Convert file handle to StringIO object
Parse the text stream this object was initialized with
Link to this section Functions
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__init__()
Initialize parameters for NeXML file parser.
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_make_tree()
Traverse the tree creating a nested clade structure.
Return a NeXML.Clade, and calls itself recursively for each child, traversing the entire tree and creating a nested structure of NeXML.Clade objects.
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add_annotation()
Add annotations for the NeXML parser.
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from_string()
Convert file handle to StringIO object.
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parse()
Parse the text stream this object was initialized with.