pyXenium.multimodal.compute_rna_protein_discordance

compute_rna_protein_discordance(adata, *, marker_pairs=None, state_signatures=None, pathway_markers=None, protein_obsm='protein', spatial_obsm='spatial', state_key='joint_cell_state', prefix='discordance', n_neighbors=15, region_bins=24)

Compute marker-, state-, and pathway-level RNA/protein discordance scores.

Parameters:

• adata (AnnData)

• marker_pairs (Sequence[MarkerPair] | None)

• state_signatures (Mapping[str, Mapping[str, Sequence[str]]] | None)

• pathway_markers (Mapping[str, Sequence[str]] | None)

• protein_obsm (str)

• spatial_obsm (str)

• state_key (str)

• prefix (str)

• n_neighbors (int)

• region_bins (int)

Return type:

dict[str, DataFrame]