CompaRNA - on-line benchmarks of RNA structure prediction methods

FAQ

Metric	RNAwolf		Alterna
MCC	0.583	>	0.568
Average MCC ± 95% Confidence Intervals	0.529 ± 0.492	>	0.507 ± 0.420
Sensitivity	0.585	>	0.549
Positive Predictive Value	0.600	<	0.608
Total TP	48	>	45
Total TN	3258	<	3264
Total FP	33	>	30
Total FP CONTRA	6	<	8
Total FP INCONS	26	>	21
Total FP COMP	1	=	1
Total FN	34	<	37
P-value	0.0

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

Total Scores
MCC	0.583
Average MCC ± 95% Confidence Intervals	0.529 ± 0.492
Sensitivity	0.585
Positive Predictive Value	0.600
Nr of predictions	4

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

Total Scores
MCC	0.568
Average MCC ± 95% Confidence Intervals	0.507 ± 0.420
Sensitivity	0.549
Positive Predictive Value	0.608
Nr of predictions	4

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...	0.47	0.44	0.53	8	513	7	0	7	0	10
3J0L_a	-	0.18	0.18	0.22	2	402	8	3	4	1	9
3RKF_A	Purine links to Rfam database...	0.82	0.79	0.86	19	844	3	1	2	0	5
3SD1_A	THF links to Rfam database...	0.55	0.55	0.57	16	1505	12	4	8	0	13

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