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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric CRWrnafold McQFold
MCC 0.310 > 0.301
Average MCC ± 95% Confidence Intervals 0.367 ± 0.253 < 0.371 ± 0.221
Sensitivity 0.319 > 0.283
Positive Predictive Value 0.302 < 0.322
Total TP 423 > 375
Total TN 2833941 < 2834177
Total FP 1421 > 1190
Total FP CONTRA 221 > 152
Total FP INCONS 757 > 638
Total FP COMP 443 > 400
Total FN 903 < 951
P-value 0.0

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Performance plots


  1. Comparison of performance of CRWrnafold and McQFold. 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 CRWrnafold and McQFold).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for CRWrnafold and McQFold. 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 CRWrnafold and McQFold).

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Performance of CRWrnafold - scored higher in this pairwise comparison

1. Total counts & total scores for CRWrnafold

Total Base Pair Counts
Total TP 423
Total TN 2833941
Total FP 1421
Total FP CONTRA 221
Total FP INCONS 757
Total FP COMP 443
Total FN 903
Total Scores
MCC 0.310
Average MCC ± 95% Confidence Intervals 0.367 ± 0.253
Sensitivity 0.319
Positive Predictive Value 0.302
Nr of predictions 7

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00443 - 0.31 0.30 0.32 79 456243 194 27 141 26 181
CRW_00702 - 0.24 0.35 0.16 26 357274 237 91 44 102 49
CRW_00704 - 0.82 0.81 0.83 76 386668 201 0 16 185 18
CRW_00730 - 0.69 0.72 0.66 116 338899 157 19 42 96 45
CRW_00780 - 0.13 0.13 0.13 34 475544 230 36 186 8 221
CRW_00794 - 0.25 0.25 0.25 62 434530 200 22 164 14 184
CRW_00796 - 0.13 0.13 0.14 30 384783 202 26 164 12 205

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Performance of McQFold - scored lower in this pairwise comparison

1. Total counts & total scores for McQFold

Total Base Pair Counts
Total TP 375
Total TN 2834177
Total FP 1190
Total FP CONTRA 152
Total FP INCONS 638
Total FP COMP 400
Total FN 951
Total Scores
MCC 0.301
Average MCC ± 95% Confidence Intervals 0.371 ± 0.221
Sensitivity 0.283
Positive Predictive Value 0.322
Nr of predictions 7

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00443 - 0.15 0.13 0.18 34 456305 172 19 132 21 226
CRW_00702 - 0.68 0.75 0.62 56 357344 176 25 10 141 19
CRW_00704 - 0.67 0.66 0.68 62 386669 180 11 18 151 32
CRW_00730 - 0.47 0.51 0.44 82 338888 161 22 84 55 79
CRW_00780 - 0.23 0.21 0.25 54 475586 170 24 136 10 201
CRW_00794 - 0.30 0.27 0.32 67 434571 161 24 116 21 179
CRW_00796 - 0.09 0.09 0.11 20 384814 170 27 142 1 215

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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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