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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric RNAshapes Cylofold
MCC 0.455 > 0.271
Average MCC ± 95% Confidence Intervals 0.441 ± 2.166 > 0.275 ± 1.303
Sensitivity 0.453 > 0.241
Positive Predictive Value 0.459 > 0.308
Total TP 62 > 33
Total TN 60453 < 60481
Total FP 84 > 78
Total FP CONTRA 10 > 3
Total FP INCONS 63 < 71
Total FP COMP 11 > 4
Total FN 75 < 104
P-value 0.0

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Performance plots


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

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

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Performance of RNAshapes - scored higher in this pairwise comparison

1. Total counts & total scores for RNAshapes

Total Base Pair Counts
Total TP 62
Total TN 60453
Total FP 84
Total FP CONTRA 10
Total FP INCONS 63
Total FP COMP 11
Total FN 75
Total Scores
MCC 0.455
Average MCC ± 95% Confidence Intervals 0.441 ± 2.166
Sensitivity 0.453
Positive Predictive Value 0.459
Nr of predictions 2

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
ASE_00408 - 0.61 0.63 0.59 45 32309 33 8 23 2 26
ASE_00429 - 0.27 0.26 0.29 17 28144 51 2 40 9 49

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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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