CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	NanoFolder		RDfolder
MCC	0.499	>	0.300
Average MCC ± 95% Confidence Intervals	0.527 ± 0.337	>	0.288 ± 0.688
Sensitivity	0.548	>	0.274
Positive Predictive Value	0.479	>	0.362
Total TP	34	>	17
Total TN	2390	<	2414
Total FP	40	>	31
Total FP CONTRA	7	>	6
Total FP INCONS	30	>	24
Total FP COMP	3	>	1
Total FN	28	<	45
P-value	0.0

Comparison of performance of NanoFolder and RDfolder. 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 NanoFolder and RDfolder).
Comparison of average Matthews Correlation Coefficients (MCCs) for NanoFolder and RDfolder. 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 NanoFolder and RDfolder).

Total Scores
MCC	0.499
Average MCC ± 95% Confidence Intervals	0.527 ± 0.337
Sensitivity	0.548
Positive Predictive Value	0.479
Nr of predictions	3

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...	0.54	0.61	0.50	11	506	11	1	10	0	7
4AOB_A	SAM links to Rfam database...	0.39	0.41	0.39	12	1406	20	4	15	1	17
4ENC_A	crcB links to Rfam database...	0.66	0.73	0.61	11	478	9	2	5	2	4

Total Scores
MCC	0.300
Average MCC ± 95% Confidence Intervals	0.288 ± 0.688
Sensitivity	0.274
Positive Predictive Value	0.362
Nr of predictions	3

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...	-0.03	0.00	0.00	0	514	14	3	11	0	18
4AOB_A	SAM links to Rfam database...	0.42	0.38	0.48	11	1414	13	3	9	1	18
4ENC_A	crcB links to Rfam database...	0.48	0.40	0.60	6	486	4	0	4	0	9

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