cellink.tl.external.generate_sldsc_genesets

cellink.tl.external.generate_sldsc_genesets(specificity_df, adata, *, out_dir, top_frac=0.1, gene_col='gene', accession_col=None, remove_version_suffix=True, include_control=True, overwrite=False)

Generate cell-type-specific gene sets for S-LDSC analysis.

Expects specificity_df to be genes × cell types, indexed by gene identifiers (symbols or Ensembl IDs). Writes one .GeneSet per cell type containing top N% genes by specificity, using accession (typically Ensembl gene IDs).

Return type:

DataFrame