CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	Cylofold		RNAwolf
MCC	0.664	>	0.484
Average MCC ± 95% Confidence Intervals	0.663 ± 0.246	>	0.459 ± 0.190
Sensitivity	0.650	>	0.472
Positive Predictive Value	0.693	>	0.520
Total TP	106	>	77
Total TN	6866	<	6871
Total FP	49	<	76
Total FP CONTRA	13	>	10
Total FP INCONS	34	<	61
Total FP COMP	2	<	5
Total FN	57	<	86
P-value	0.0

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

Total Scores
MCC	0.664
Average MCC ± 95% Confidence Intervals	0.663 ± 0.246
Sensitivity	0.650
Positive Predictive Value	0.693
Nr of predictions	8

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2LC8_A	GP_knot1 links to Rfam database...	0.64	0.61	0.69	11	512	5	1	4	0	7
3J0L_a	-	0.17	0.18	0.20	2	401	9	3	5	1	9
3RKF_A	Purine links to Rfam database...	0.91	0.83	1.00	20	846	0	0	0	0	4
3SD1_A	THF links to Rfam database...	0.71	0.69	0.74	20	1506	7	2	5	0	9
3U4M_B	-	0.49	0.55	0.46	12	1250	14	3	11	0	10
4AOB_A	SAM links to Rfam database...	0.42	0.38	0.48	11	1414	13	3	9	1	18
4ENB_A	crcB links to Rfam database...	1.00	1.00	1.00	15	457	0	0	0	0	0
4ENC_A	crcB links to Rfam database...	0.97	1.00	0.94	15	480	1	1	0	0	0

Total Scores
MCC	0.484
Average MCC ± 95% Confidence Intervals	0.459 ± 0.190
Sensitivity	0.472
Positive Predictive Value	0.520
Nr of predictions	8

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
2LC8_A	GP_knot1 links to Rfam database...	0.52	0.50	0.56	9	512	7	0	7	0	9
3J0L_a	-	0.14	0.18	0.14	2	397	13	4	8	1	9
3RKF_A	Purine links to Rfam database...	0.89	0.83	0.95	20	845	1	0	1	0	4
3SD1_A	THF links to Rfam database...	0.58	0.59	0.59	17	1504	12	2	10	0	12
3U4M_B	-	0.50	0.50	0.52	11	1255	12	1	9	2	11
4AOB_A	SAM links to Rfam database...	0.26	0.24	0.30	7	1414	17	2	14	1	22
4ENB_A	crcB links to Rfam database...	0.45	0.40	0.55	6	461	5	1	4	0	9
4ENC_A	crcB links to Rfam database...	0.34	0.33	0.38	5	483	9	0	8	1	10

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