kg_microbe.transform_utils.wallen_etal package

Submodules

kg_microbe.transform_utils.wallen_etal.wallen_etal module

WallenEtAl Transform class.

class kg_microbe.transform_utils.wallen_etal.wallen_etal.WallenEtAlTransform(input_dir=None, output_dir=None)

Bases: Transform

A class used to represent a transformation process for PdMetagenomics data.

get_disease_direction(pd_abundance, nhc_abundance)

Determine direction of microbe-disease relationship.

Parameters:

• pd_abundance (float) – Abundance value in PD group.

• nhc_abundance (float) – Abundance value in NHC group.

run(data_file=None, show_status=True)

Run WallenEtAlTransform.

Module contents

WallenEtAl transform.

class kg_microbe.transform_utils.wallen_etal.WallenEtAlTransform(input_dir=None, output_dir=None)

Bases: Transform

A class used to represent a transformation process for PdMetagenomics data.

get_disease_direction(pd_abundance, nhc_abundance)

Determine direction of microbe-disease relationship.

Parameters:

• pd_abundance (float) – Abundance value in PD group.

• nhc_abundance (float) – Abundance value in NHC group.

run(data_file=None, show_status=True)

Run WallenEtAlTransform.