CompaRNA - on-line benchmarks of RNA structure prediction methods

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Metric	ContextFold		Murlet(seed)
MCC	0.605	>	0.470
Average MCC ± 95% Confidence Intervals	0.607 ± 0.155	>	0.474 ± 0.190
Sensitivity	0.559	>	0.313
Positive Predictive Value	0.663	<	0.717
Total TP	118	>	66
Total TN	17684	<	17770
Total FP	85	>	27
Total FP CONTRA	18	>	1
Total FP INCONS	42	>	25
Total FP COMP	25	>	1
Total FN	93	<	145
P-value	0.0

Comparison of performance of ContextFold and Murlet(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 ContextFold and Murlet(seed)).
Comparison of average Matthews Correlation Coefficients (MCCs) for ContextFold and Murlet(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 ContextFold and Murlet(seed)).

Total Scores
MCC	0.605
Average MCC ± 95% Confidence Intervals	0.607 ± 0.155
Sensitivity	0.559
Positive Predictive Value	0.663
Nr of predictions	9

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...	0.58	0.56	0.63	10	512	6	0	6	0	8
3W3S_B	tRNA-Sec links to Rfam database...	0.87	0.85	0.90	28	1958	4	0	3	1	5
3ZEX_C	5_8S_rRNA links to Rfam database...	0.44	0.41	0.48	12	5349	23	4	9	10	17
4A1C_2	5_8S_rRNA links to Rfam database...	0.26	0.25	0.28	5	4498	26	3	10	13	15
4AOB_A	SAM links to Rfam database...	0.62	0.59	0.68	17	1412	9	2	6	1	12
4ENB_A	crcB links to Rfam database...	0.77	0.60	1.00	9	463	0	0	0	0	6
4ENC_A	crcB links to Rfam database...	0.73	0.60	0.90	9	486	1	1	0	0	6
4FRG_B	AdoCbl-variant links to Rfam database...	0.77	0.71	0.85	17	1182	3	2	1	0	7
4FRN_A	AdoCbl-variant links to Rfam database...	0.42	0.39	0.46	11	1824	13	6	7	0	17

Total Scores
MCC	0.470
Average MCC ± 95% Confidence Intervals	0.474 ± 0.190
Sensitivity	0.313
Positive Predictive Value	0.717
Nr of predictions	9

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	516	12	0	12	0	18
3W3S_B	tRNA-Sec links to Rfam database...	0.45	0.27	0.75	9	1977	3	0	3	0	24
3ZEX_C	5_8S_rRNA links to Rfam database...	0.49	0.24	1.00	7	5367	0	0	0	0	22
4A1C_2	5_8S_rRNA links to Rfam database...	0.59	0.35	1.00	7	4509	0	0	0	0	13
4AOB_A	SAM links to Rfam database...	0.69	0.48	1.00	14	1423	1	0	0	1	15
4ENB_A	crcB links to Rfam database...	0.63	0.40	1.00	6	466	0	0	0	0	9
4ENC_A	crcB links to Rfam database...	0.63	0.40	1.00	6	490	0	0	0	0	9
4FRG_B	AdoCbl-variant links to Rfam database...	0.17	0.13	0.25	3	1190	9	0	9	0	21
4FRN_A	AdoCbl-variant links to Rfam database...	0.66	0.50	0.88	14	1832	2	1	1	0	14

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