Table 3.

Performance of logistic regression A approach (LR-A), logistic regression B approach (LR-B), pathogenicity score (PS) and the Bayesian approach (BS) on the entire Clinvitae validation set (“all” columns) and on the subset of Clinvitae variants that are interpreted as VUS by the ACMG/AMP guidelines (“VUS”) columns.

	LR-A		LR-B		PS		BS
	All	VUS	All	VUS	All	VUS	All	VUS
Accuracy	0.9717	0.8630	0.9702	0.8507	0.9559	0.7793	0.9082	0.6161
Precision	0.9901	0.9582	0.9943	0.9703	0.9870	0.9435	0.9979	0.9679
AUC	0.9667	0.8429	0.9641	0.8270	0.9476	0.7443	0.8872	0.5489
F1	0.9643	0.8147	0.9621	0.7921	0.9433	0.6633	0.8727	0.1817
Recall	0.9398	0.7087	0.9318	0.6692	0.9033	0.5114	0.7755	0.1003
Balanced accuracy	0.9667	0.8439	0.9641	0.8270	0.9476	0.7743	0.8872	0.5489
MCC	0.9419	0.7302	0.9542	0.7193	0.9098	0.5738	0.8184	0.2357