decoupler.run_ulm
- decoupler.run_ulm(mat, net, source='source', target='target', weight='weight', min_n=5, verbose=False, use_raw=True)
Univariate Linear Model (ULM).
Wrapper to run ULM.
- Parameters:
- matlist, pd.DataFrame or AnnData
List of [features, matrix], dataframe (samples x features) or an AnnData instance.
- netpd.DataFrame
Network in long format.
- sourcestr
Column name in net with source nodes.
- targetstr
Column name in net with target nodes.
- weightstr
Column name in net with weights.
- min_nint
Minimum of targets per source. If less, sources are removed.
- verbosebool
Whether to show progress.
- use_rawbool
Use raw attribute of mat if present.
- Returns:
- Returns ulm activity estimates and p-values or stores them in mat.obsm[‘ulm_estimate’] and mat.obsm[‘ulm_pvals’].