microbetag.config
=================

.. py:module:: microbetag.config






Module Contents
---------------

.. py:function:: load_abundance(abd_file)

   Load a tsv/csv format abundance table assuming the sequence id is procided in the first column
   and the taxonomy in the last one

   :return seq_id_to_taxonomy: A pd.DataFrame with the sequence id and their corresponding genome
   :return sequence_id_column_name: The name (``str``) of the column with the sequence identifier (e.g. ``seqId``)
   :return taxonomy_column_name: The name (``str``) of the column with the taxonomy


.. py:class:: Config(conf, config_file)

   Parses a microbetag configuration file (yaml) to init a microbetag run.


   .. py:method:: export_to_log(log_file='parameters.log')