CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	Carnac(20)		RNAwolf
MCC	0.600	>	0.442
Average MCC ± 95% Confidence Intervals	0.440 ± 0.395	>	0.439 ± 0.284
Sensitivity	0.417	<	0.439
Positive Predictive Value	0.873	>	0.460
Total TP	55	<	58
Total TN	9257	>	9194
Total FP	10	<	82
Total FP CONTRA	2	<	17
Total FP INCONS	6	<	51
Total FP COMP	2	<	14
Total FN	77	>	74
P-value	0.0

Comparison of performance of Carnac(20) 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 Carnac(20) and RNAwolf).
Comparison of average Matthews Correlation Coefficients (MCCs) for Carnac(20) 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 Carnac(20) and RNAwolf).

Total Scores
MCC	0.600
Average MCC ± 95% Confidence Intervals	0.440 ± 0.395
Sensitivity	0.417
Positive Predictive Value	0.873
Nr of predictions	6

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
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...	0.72	0.55	0.94	16	1516	1	0	1	0	13
4A1C_2	5_8S_rRNA links to Rfam database...	0.42	0.25	0.71	5	4509	3	0	2	1	15
4AOB_A	SAM links to Rfam database...	0.59	0.48	0.74	14	1418	6	2	3	1	15
4ENB_A	crcB links to Rfam database...	0.00	0.00	0.00	0	472	0	0	0	0	15
4ENC_A	crcB links to Rfam database...	0.00	0.00	0.00	0	496	0	0	0	0	15

Total Scores
MCC	0.442
Average MCC ± 95% Confidence Intervals	0.439 ± 0.284
Sensitivity	0.439
Positive Predictive Value	0.460
Nr of predictions	6

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
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
4A1C_2	5_8S_rRNA links to Rfam database...	0.12	0.15	0.10	3	4487	38	12	14	12	17
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.