micom.interaction.scores

Various interaction scores.

Module Contents

Functions

_mes(→ float)

Helper to calculate the MES score.

MES(→ pandas.DataFrame)

Calculate the Metabolic Exchange Score (MES) for each metabolite.
micom.interaction.scores._mes(df: pandas.DataFrame) → float[source]

Helper to calculate the MES score.

micom.interaction.scores.MES(results: micom.workflows.GrowthResults, cutoff: float = None) → pandas.DataFrame[source]

Calculate the Metabolic Exchange Score (MES) for each metabolite.

MES is the harmonic mean of producers and consumers for a chosen metabolite in one sample. High values indicate a large prevalence of cross-feeding for the particular metabolite. A value of zero indicates an absence of cross-feeding for the particular metabolite.

Parameters:

  • results (GrowthResults) – The growth results to use.

  • cutoff (float) – The smallest flux to consider in the analysis. Will default to the solver tolerance if set to None.

Returns:

The scores for each metabolite and each sample including metabolite annotations.

Return type:

pandas.DataFrame

References