liana.method.estimate_metalinks

liana.method.estimate_metalinks(adata, resource, pd_net, t_net=None, x_name='metabolite', y_name='receptor', use_raw=True, layer=None, verbose=False, **kwargs)

Estimate Metabolites from anndata object, and return a MuData object of metabolites and receptors.

Parameters:

• adata (AnnData) – Annotated data matrix.

• resource (DataFrame) – Resource to use for ligand-receptor inference.

• pd_net (DataFrame) – Metabolic production-degradation network to use.

• t_net (DataFrame (default: None)) – Transport set to use.

• x_name (str (default: 'metabolite')) – Name of the metabolite modality.

• y_name (str (default: 'receptor')) – Name of the receptor modality. Must be present as a column in the resource.

• %(use_raw)s

• %(layer)s

• %(verbose)s

• **kwargs – Additional arguments to pass to the decoupler-py functions. Method-specific arguments are not supported.

Return type:

MuData

Returns:

A MuData object with metabolite & receptor assays.