Docstring:
Usage: qiime gneiss assign-ids [OPTIONS]
Assigns UUIDs to uniquely identify internal nodes in the tree. Also
corrects for polytomies to create strictly bifurcating trees and aligns the
table columns with the tree tip names
Inputs:
--i-input-table ARTIFACT FeatureTable[Frequency]
The input table of counts. [required]
--i-input-tree ARTIFACT
Phylogeny[Rooted] The input tree with potential missing ids. [required]
Outputs:
--o-output-table ARTIFACT FeatureTable[Frequency]
A table with features matching the tree tips.
[required]
--o-output-tree ARTIFACT
Hierarchy A tree with uniquely identifying ids. [required]
Miscellaneous:
--output-dir PATH Output unspecified results to a directory
--verbose / --quiet Display verbose output to stdout and/or stderr during
execution of this action. Or silence output if
execution is successful (silence is golden).
--example-data PATH Write example data and exit.
--citations Show citations and exit.
--help Show this message and exit.
Import:
from qiime2.plugins.gneiss.methods import assign_ids
Docstring:
Assigns ids on internal nodes in the tree, and makes sure that they are
consistent with the table columns.
Assigns UUIDs to uniquely identify internal nodes in the tree. Also
corrects for polytomies to create strictly bifurcating trees and aligns the
table columns with the tree tip names
Parameters
----------
input_table : FeatureTable[Frequency]
The input table of counts.
input_tree : Phylogeny[Rooted]
The input tree with potential missing ids.
Returns
-------
output_table : FeatureTable[Frequency]
A table with features matching the tree tips.
output_tree : Hierarchy
A tree with uniquely identifying ids.
