CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	Cylofold		NanoFolder
MCC	0.663	>	0.191
Average MCC ± 95% Confidence Intervals	0.763 ± 0.223	>	0.245 ± 0.300
Sensitivity	0.602	>	0.218
Positive Predictive Value	0.734	>	0.175
Total TP	130	>	47
Total TN	45039	>	44947
Total FP	60	<	236
Total FP CONTRA	2	<	29
Total FP INCONS	45	<	193
Total FP COMP	13	<	14
Total FN	86	<	169
P-value	0.0

Comparison of performance of Cylofold 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 Cylofold and NanoFolder).
Comparison of average Matthews Correlation Coefficients (MCCs) for Cylofold 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 Cylofold and NanoFolder).

Total Scores
MCC	0.663
Average MCC ± 95% Confidence Intervals	0.763 ± 0.223
Sensitivity	0.602
Positive Predictive Value	0.734
Nr of predictions	7

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00429	-	0.38	0.33	0.43	22	28152	33	0	29	4	44
PDB_00571	tRNA links to Rfam database...	0.87	0.80	0.95	20	3300	1	1	0	0	5
PDB_00828	Purine links to Rfam database...	0.88	0.78	1.00	21	2464	0	0	0	0	6
PDB_00851	-	0.45	0.39	0.53	16	4723	14	0	14	0	25
PDB_01009	tRNA links to Rfam database...	0.90	0.90	0.90	19	2464	5	0	2	3	2
RFA_00770	Corona_pk3 links to Rfam database...	0.88	0.78	1.00	14	2002	3	0	0	3	4
RFA_00773	Corona_pk3 links to Rfam database...	0.97	1.00	0.95	18	1934	4	1	0	3	0

Total Scores
MCC	0.191
Average MCC ± 95% Confidence Intervals	0.245 ± 0.300
Sensitivity	0.218
Positive Predictive Value	0.175
Nr of predictions	7

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
ASE_00429	-	0.08	0.09	0.07	6	28114	84	14	69	1	60
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_00851	-	0.16	0.17	0.17	7	4711	35	3	32	0	34
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

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