biopython v1.71.0 Bio.Phylo.PhyloXML.Clade
Describes a branch of the current phylogenetic tree.
Used recursively, describes the topology of a phylogenetic tree.
width elements should be interpreted by client code
as applying to the whole clade, including all descendents, unless
overwritten in-sub clades. This module doesn’t automatically assign these
attributes to sub-clades to achieve this cascade — and neither should you.
branch_length parent branch length of this clade id_source link other elements to a clade (on the xml-level) name : string short label for this clade confidences : list of Confidence objects used to indicate the support for a clade/parent branch. width : float branch width for this clade (including branch from parent) color : BranchColor color used for graphical display of this clade node_id unique identifier for the root node of this clade taxonomies : list Taxonomy objects sequences : list Sequence objects events : Events describe such events as gene-duplications at the root node/parent branch of this clade binary_characters : BinaryCharacters binary characters distributions : list of Distribution objects distribution(s) of this clade date : Date a date for the root node of this clade references : list Reference objects properties : list Property objects clades : list Clade objects Sub-clades other : list of Other objects non-phyloXML objects
Link to this section Summary
Link to this section Functions
Initialize value for the Clade object.
Create a new PhyloXML Clade from a Newick or BaseTree Clade object.
Keyword arguments are the usual PhyloXML Clade constructor parameters.
Create a new phylogeny containing just this clade.