Supporting functions for annotation checks performed on the model object.
memote.support.annotation.
find_components_without_annotation
(model, components)[source]¶Find model components with empty annotation attributes.
Parameters: | model : cobra.Model
components : {“metabolites”, “reactions”, “genes”}
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Returns: | list
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memote.support.annotation.
generate_component_annotation_miriam_match
(model, components)[source]¶Tabulate which MIRIAM databases the component’s annotation match.
Parameters: | model : cobra.Model
components : {“metabolites”, “reactions”, “genes”}
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Returns: | pandas.DataFrame
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memote.support.annotation.
generate_component_annotation_overview
(model, components)[source]¶Tabulate which MIRIAM databases the component’s annotation match.
Parameters: | model : cobra.Model
components : {“metabolites”, “reactions”, “genes”}
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Returns: | pandas.DataFrame
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memote.support.annotation.
generate_component_id_namespace_overview
(model, components)[source]¶Tabulate which MIRIAM databases the component’s identifier matches.
Parameters: | model : cobra.Model
components : {“metabolites”, “reactions”, “genes”}
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Returns: | pandas.DataFrame
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