CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	MCFold		RNAwolf
MCC	0.500	>	0.466
Average MCC ± 95% Confidence Intervals	0.493 ± 0.234	>	0.442 ± 0.208
Sensitivity	0.532	>	0.474
Positive Predictive Value	0.485	>	0.474
Total TP	82	>	73
Total TN	9929	<	9944
Total FP	113	>	97
Total FP CONTRA	15	<	20
Total FP INCONS	72	>	61
Total FP COMP	26	>	16
Total FN	72	<	81
P-value	0.0

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

Total Scores
MCC	0.500
Average MCC ± 95% Confidence Intervals	0.493 ± 0.234
Sensitivity	0.532
Positive Predictive Value	0.485
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...	0.44	0.44	0.47	8	511	10	0	9	1	10
3J0L_a	-	0.14	0.18	0.15	2	398	13	1	10	2	9
3RKF_A	Purine links to Rfam database...	0.89	0.88	0.91	21	843	3	0	2	1	3
3SD1_A	THF links to Rfam database...	0.43	0.45	0.43	13	1503	17	1	16	0	16
3U4M_B	-	0.74	0.77	0.71	17	1252	10	1	6	3	5
4A1C_2	5_8S_rRNA links to Rfam database...	0.18	0.25	0.14	5	4480	45	12	19	14	15
4ENB_A	crcB links to Rfam database...	0.78	0.73	0.85	11	459	4	0	2	2	4
4ENC_A	crcB links to Rfam database...	0.34	0.33	0.38	5	483	11	0	8	3	10

Total Scores
MCC	0.466
Average MCC ± 95% Confidence Intervals	0.442 ± 0.208
Sensitivity	0.474
Positive Predictive Value	0.474
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
4A1C_2	5_8S_rRNA links to Rfam database...	0.12	0.15	0.10	3	4487	38	12	14	12	17
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.