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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric Afold McQFold
MCC 0.327 > 0.275
Average MCC ± 95% Confidence Intervals 0.382 ± 0.248 > 0.320 ± 0.226
Sensitivity 0.322 > 0.255
Positive Predictive Value 0.332 > 0.297
Total TP 403 > 319
Total TN 2476693 < 2476833
Total FP 1127 > 1014
Total FP CONTRA 124 < 127
Total FP INCONS 687 > 628
Total FP COMP 316 > 259
Total FN 848 < 932
P-value 0.0

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Performance plots


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

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

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Performance of Afold - scored higher in this pairwise comparison

1. Total counts & total scores for Afold

Total Base Pair Counts
Total TP 403
Total TN 2476693
Total FP 1127
Total FP CONTRA 124
Total FP INCONS 687
Total FP COMP 316
Total FN 848
Total Scores
MCC 0.327
Average MCC ± 95% Confidence Intervals 0.382 ± 0.248
Sensitivity 0.322
Positive Predictive Value 0.332
Nr of predictions 6

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00443 - 0.39 0.36 0.42 93 456266 153 18 113 22 167
CRW_00704 - 0.81 0.80 0.82 75 386669 198 4 12 182 19
CRW_00730 - 0.46 0.52 0.41 84 338869 186 39 84 63 77
CRW_00780 - 0.18 0.18 0.19 45 475569 201 21 165 15 210
CRW_00794 - 0.24 0.24 0.25 59 434543 196 15 161 20 187
CRW_00796 - 0.20 0.20 0.21 47 384777 193 27 152 14 188

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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 319
Total TN 2476833
Total FP 1014
Total FP CONTRA 127
Total FP INCONS 628
Total FP COMP 259
Total FN 932
Total Scores
MCC 0.275
Average MCC ± 95% Confidence Intervals 0.320 ± 0.226
Sensitivity 0.255
Positive Predictive Value 0.297
Nr of predictions 6

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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_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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