omicverse.utils.biocontext.query_panglaodb

omicverse.utils.biocontext.query_panglaodb(species='Hs', cell_type=None, gene_symbol=None, organ=None, min_sensitivity=None, min_specificity=None)[source]

Query PanglaoDB for cell type marker genes.

Parameters:

  • species (str) – 'Hs' (human), 'Mm' (mouse), or 'Mm Hs' (both).

  • cell_type (str, optional) – Cell type to query (e.g. 'T cells').

  • gene_symbol (str, optional) – Gene symbol to look up.

  • organ (str, optional) – Organ filter (e.g. 'Brain').

  • min_sensitivity (float, optional) – Minimum sensitivity threshold.

  • min_specificity (float, optional) – Minimum specificity threshold.

Returns:

Marker gene table with sensitivity and specificity scores.

Return type:

pd.DataFrame