`micom.qiime_formats`#

Provides support for Qiime formats.

Module Contents#

Functions#

`metadata`(artifact)	Read metadata from a Qiime 2 artifact.
`load_qiime_model_db`(artifact, extract_path)	Prepare a model database for use.
`load_qiime_manifest`(artifact)	Prepare community models for use.
`load_qiime_model`(artifact, id)	Load a model from a Qiime 2 artifact.
`load_qiime_medium`(artifact)	Load a growth medium/diet from a Qiime 2 artifact.
`load_qiime_feature_table`(artifact)	Load a feature table from a Qiime 2 artifact.
`load_qiime_taxonomy`(artifact)	Load taxonomy feature data from a Qiime 2 artifact.

Attributes#

`yaml`
`_has_manifest`

micom.qiime_formats.yaml[source]#

micom.qiime_formats._has_manifest = ['CommunityModels[Pickle]', 'MetabolicModels[JSON]', 'MetabolicModels[SBML]'][source]#

micom.qiime_formats.metadata(artifact)[source]#: Read metadata from a Qiime 2 artifact.

micom.qiime_formats.load_qiime_model_db(artifact, extract_path)[source]#: Prepare a model database for use.

micom.qiime_formats.load_qiime_manifest(artifact)[source]#: Prepare community models for use.

micom.qiime_formats.load_qiime_model(artifact, id)[source]#: Load a model from a Qiime 2 artifact.

micom.qiime_formats.load_qiime_medium(artifact)[source]#: Load a growth medium/diet from a Qiime 2 artifact.

micom.qiime_formats.load_qiime_feature_table(artifact)[source]#: Load a feature table from a Qiime 2 artifact.

micom.qiime_formats.load_qiime_taxonomy(artifact)[source]#: Load taxonomy feature data from a Qiime 2 artifact.