CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	Afold		NanoFolder
MCC	0.463	>	0.346
Average MCC ± 95% Confidence Intervals	0.462 ± 0.400	>	0.385 ± 0.426
Sensitivity	0.424	>	0.400
Positive Predictive Value	0.515	>	0.311
Total TP	53	>	50
Total TN	14173	>	14115
Total FP	60	<	124
Total FP CONTRA	13	<	19
Total FP INCONS	37	<	92
Total FP COMP	10	<	13
Total FN	72	<	75
P-value	0.0

Comparison of performance of Afold and NanoFolder. Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for Afold and NanoFolder).
Comparison of average Matthews Correlation Coefficients (MCCs) for Afold and NanoFolder. The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for Afold and NanoFolder).

Total Scores
MCC	0.463
Average MCC ± 95% Confidence Intervals	0.462 ± 0.400
Sensitivity	0.424
Positive Predictive Value	0.515
Nr of predictions	6

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
PDB_00571	tRNA links to Rfam database...	-0.01	0.00	0.00	0	3302	20	5	14	1	25
PDB_00828	Purine links to Rfam database...	0.88	0.78	1.00	21	2464	0	0	0	0	6
PDB_01009	tRNA links to Rfam database...	0.52	0.57	0.48	12	2460	13	5	8	0	9
RFA_00770	Corona_pk3 links to Rfam database...	0.68	0.56	0.83	10	2004	6	0	2	4	8
RFA_00773	Corona_pk3 links to Rfam database...	0.71	0.56	0.91	10	1942	5	1	0	4	8
RFA_00808	RydC links to Rfam database...	-0.01	0.00	0.00	0	2001	16	2	13	1	16

Total Scores
MCC	0.346
Average MCC ± 95% Confidence Intervals	0.385 ± 0.426
Sensitivity	0.400
Positive Predictive Value	0.311
Nr of predictions	6

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
PDB_00571	tRNA links to Rfam database...	-0.01	0.00	0.00	0	3286	36	6	29	1	25
PDB_00828	Purine links to Rfam database...	0.30	0.33	0.28	9	2453	23	0	23	0	18
PDB_01009	tRNA links to Rfam database...	0.27	0.33	0.23	7	2455	25	3	20	2	14
RFA_00770	Corona_pk3 links to Rfam database...	-0.01	0.00	0.00	0	1996	24	0	20	4	18
RFA_00773	Corona_pk3 links to Rfam database...	0.93	1.00	0.86	18	1932	9	3	0	6	0
RFA_00808	RydC links to Rfam database...	0.83	1.00	0.70	16	1993	7	7	0	0	0

Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.