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ancestral: update module docstring to include amino acids #1283

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Aug 18, 2023
Merged

ancestral: update module docstring to include amino acids #1283

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cbd45e1
ancestral: update module docstring to include amino acids
joverlee521 Aug 16, 2023
cc9ca1c
ancestral: add warning in docstring of separate nuc/aa inferences
joverlee521 Aug 17, 2023
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5 changes: 5 additions & 0 deletions augur/ancestral.py
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Expand Up @@ -8,6 +8,11 @@
that has a mismatch between its own sequence and its parent's sequence.
The node sequences and mutations are output to a node-data JSON file.

If amino acid options are provided, the ancestral amino acid sequences for each
requested gene are inferred with the same method as the nucleotide sequences described above.
The inferred amino acid mutations will be included in the output node-data JSON
file, with the format equivalent to the output of `augur translate`.

.. note::

The mutation positions in the node-data JSON are one-based.
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