CompaRNA - on-line benchmarks of RNA structure prediction methods

CompaRNA - on-line benchmarks of RNA structure prediction methods

Laboratory of Structural Bioinformatics @ Adam Mickiewicz University in Poznan

Home

RNA 2D Atlas

Help

FAQ

Table of contents:

Overview

Performance Plots

Performance of RNASampler(seed) - scored higher in this pairwise comparison

Total counts & total scores
Individual counts

Performance of PETfold_pre2.0(20) - scored lower in this pairwise comparison

Total counts & total scores
Individual counts

Compile and download dataset for RNASampler(seed) & PETfold_pre2.0(20) [.zip] - may take several seconds...

Overview

Metric	RNASampler(seed)		PETfold_pre2.0(20)
MCC	0.310	>	0.193
Average MCC ± 95% Confidence Intervals	0.310 ±	>	0.193 ±
Sensitivity	0.242	>	0.152
Positive Predictive Value	0.400	>	0.250
Total TP	8	>	5
Total TN	11761	=	11761
Total FP	20	<	25
Total FP CONTRA	0	=	0
Total FP INCONS	12	<	15
Total FP COMP	8	<	10
Total FN	25	<	28
P-value	0.0

Performance plots

Performance of RNASampler(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for RNASampler(seed)

Total Base Pair Counts
Total TP	8
Total TN	11761
Total FP	20
Total FP CONTRA	0
Total FP INCONS	12
Total FP COMP	8
Total FN	25

Total Scores
MCC	0.310
Average MCC ± 95% Confidence Intervals	0.310 ±
Sensitivity	0.242
Positive Predictive Value	0.400
Nr of predictions	1

2. Individual counts for RNASampler(seed) [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
4A1C_2	5_8S_rRNA links to Rfam database...	0.31	0.24	0.40	8	11761	20	0	12	8	25

Performance of PETfold_pre2.0(20) - scored lower in this pairwise comparison

1. Total counts & total scores for PETfold_pre2.0(20)

Total Base Pair Counts
Total TP	5
Total TN	11761
Total FP	25
Total FP CONTRA	0
Total FP INCONS	15
Total FP COMP	10
Total FN	28

Total Scores
MCC	0.193
Average MCC ± 95% Confidence Intervals	0.193 ±
Sensitivity	0.152
Positive Predictive Value	0.250
Nr of predictions	1

2. Individual counts for PETfold_pre2.0(20) [ download as .csv ]

RNA Chain	Rfam family	MCC	SENS	PPV	TP	TN	FP	FP CONTRA	FP INCONS	FP COMP	FN
4A1C_2	5_8S_rRNA links to Rfam database...	0.19	0.15	0.25	5	11761	25	0	15	10	28

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