CompaRNA - on-line benchmarks of RNA structure prediction methods
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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of RNAwolf - scored higher in this pairwise comparison

  4. Performance of Cylofold - scored lower in this pairwise comparison

  5. Compile and download dataset for RNAwolf & Cylofold [.zip] - may take several seconds...


Overview

Metric RNAwolf Cylofold
MCC 0.339 > 0.271
Average MCC ± 95% Confidence Intervals 0.340 ± 0.274 > 0.275 ± 1.303
Sensitivity 0.350 > 0.241
Positive Predictive Value 0.331 > 0.308
Total TP 48 > 33
Total TN 60443 < 60481
Total FP 113 > 78
Total FP CONTRA 18 > 3
Total FP INCONS 79 > 71
Total FP COMP 16 > 4
Total FN 89 < 104
P-value 0.0

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Performance plots


  1. Comparison of performance of RNAwolf and Cylofold. 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 Cylofold).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for RNAwolf and Cylofold. 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 Cylofold).

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Performance of RNAwolf - scored higher in this pairwise comparison

1. Total counts & total scores for RNAwolf

Total Base Pair Counts
Total TP 48
Total TN 60443
Total FP 113
Total FP CONTRA 18
Total FP INCONS 79
Total FP COMP 16
Total FN 89
Total Scores
MCC 0.339
Average MCC ± 95% Confidence Intervals 0.340 ± 0.274
Sensitivity 0.350
Positive Predictive Value 0.331
Nr of predictions 2

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2. Individual counts for RNAwolf [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
ASE_00408 - 0.32 0.32 0.32 23 32312 59 6 44 9 48
ASE_00429 - 0.36 0.38 0.35 25 28131 54 12 35 7 41

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Performance of Cylofold - scored lower in this pairwise comparison

1. Total counts & total scores for Cylofold

Total Base Pair Counts
Total TP 33
Total TN 60481
Total FP 78
Total FP CONTRA 3
Total FP INCONS 71
Total FP COMP 4
Total FN 104
Total Scores
MCC 0.271
Average MCC ± 95% Confidence Intervals 0.275 ± 1.303
Sensitivity 0.241
Positive Predictive Value 0.308
Nr of predictions 2

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2. Individual counts for Cylofold [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
ASE_00408 - 0.17 0.15 0.20 11 32329 45 3 42 0 60
ASE_00429 - 0.38 0.33 0.43 22 28152 33 0 29 4 44

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

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