omicverse.single.pyCEFCON¶

omicverse.single.pyCEFCON(input_expData, input_priorNet, input_genesDE=None, additional_edges_pct=0.01, cuda=0, seed=2023, hidden_dim=128, output_dim=64, heads=4, attention='COS', miu=0.5, epochs=350, repeats=5, edge_threshold_param=8, remove_self_loops=False, topK_drivers=100, solver='GUROBI')[source]¶

CEFCON workflow wrapper for driver-regulator discovery.

Parameters:

input_expData (str or AnnData or pd.DataFrame) – Input expression data with optional lineage metadata.
input_priorNet (str or pd.DataFrame) – Prior interaction network.
input_genesDE (str or pd.DataFrame, optional) – Differential-expression score table.
repeats (int, default=5) – Number of model repeats.
solver ({'GUROBI', 'SCIP'}, default='GUROBI') – ILP solver used for driver-regulator selection.