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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric UNAFold Cylofold
MCC 0.443 > 0.271
Average MCC ± 95% Confidence Intervals 0.440 ± 0.607 > 0.275 ± 1.303
Sensitivity 0.431 > 0.241
Positive Predictive Value 0.457 > 0.308
Total TP 59 > 33
Total TN 60459 < 60481
Total FP 83 > 78
Total FP CONTRA 3 = 3
Total FP INCONS 67 < 71
Total FP COMP 13 > 4
Total FN 78 < 104
P-value 0.0

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Performance plots


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

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

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Performance of UNAFold - scored higher in this pairwise comparison

1. Total counts & total scores for UNAFold

Total Base Pair Counts
Total TP 59
Total TN 60459
Total FP 83
Total FP CONTRA 3
Total FP INCONS 67
Total FP COMP 13
Total FN 78
Total Scores
MCC 0.443
Average MCC ± 95% Confidence Intervals 0.440 ± 0.607
Sensitivity 0.431
Positive Predictive Value 0.457
Nr of predictions 2

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
ASE_00408 - 0.49 0.48 0.50 34 32317 39 2 32 5 37
ASE_00429 - 0.39 0.38 0.41 25 28142 44 1 35 8 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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