CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	CentroidAlifold(seed)		PETfold_2.0(seed)
MCC	0.862	>	0.831
Average MCC ± 95% Confidence Intervals	0.862 ±	>	0.831 ±
Sensitivity	0.806	=	0.806
Positive Predictive Value	0.926	>	0.862
Total TP	25	=	25
Total TN	1651	>	1649
Total FP	2	<	5
Total FP CONTRA	1	<	2
Total FP INCONS	1	<	2
Total FP COMP	0	<	1
Total FN	6	=	6
P-value	0.0

Comparison of performance of CentroidAlifold(seed) and PETfold_2.0(seed). 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 CentroidAlifold(seed) and PETfold_2.0(seed)).
Comparison of average Matthews Correlation Coefficients (MCCs) for CentroidAlifold(seed) and PETfold_2.0(seed). 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 CentroidAlifold(seed) and PETfold_2.0(seed)).

Total Scores
MCC	0.862
Average MCC ± 95% Confidence Intervals	0.862 ±
Sensitivity	0.806
Positive Predictive Value	0.926
Nr of predictions	1

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
3W1K_J	tRNA-Sec links to Rfam database...	0.86	0.81	0.93	25	1651	2	1	1	0	6

Total Scores
MCC	0.831
Average MCC ± 95% Confidence Intervals	0.831 ±
Sensitivity	0.806
Positive Predictive Value	0.862
Nr of predictions	1

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
3W1K_J	tRNA-Sec links to Rfam database...	0.83	0.81	0.86	25	1649	5	2	2	1	6

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