Table 3. Comparison of the maximum F1-scores (Fmax) and minimum S-scores (Smin) between methods for biological processes (BPO), molecular functions (MFO), and cellular components (CCO).

Best results displayed in bold.

Method	Fmax BPO	Fmax MFO	Fmax CCO	Smin BPO	Smin MFO	Smin CCO
DeepGOPlus	0.32	0.56	0.63	90.31	11.71	22.71
Argot2	0.39	0.55	0.46	73.42	10.00	22.54
Argot2.5	0.45	0.58	0.48	69.01	9.72	22.21
Wei2GO	0.52	0.58	0.39	53.08	8.87	23.03