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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric McQFold RNAwolf
MCC 0.301 > 0.202
Average MCC ± 95% Confidence Intervals 0.371 ± 0.221 > 0.232 ± 0.116
Sensitivity 0.283 > 0.216
Positive Predictive Value 0.322 > 0.190
Total TP 375 > 286
Total TN 2834177 > 2833834
Total FP 1190 < 1773
Total FP CONTRA 152 < 268
Total FP INCONS 638 < 954
Total FP COMP 400 < 551
Total FN 951 < 1040
P-value 0.0

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Performance plots


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

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

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Performance of McQFold - scored higher 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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Performance of RNAwolf - scored lower in this pairwise comparison

1. Total counts & total scores for RNAwolf

Total Base Pair Counts
Total TP 286
Total TN 2833834
Total FP 1773
Total FP CONTRA 268
Total FP INCONS 954
Total FP COMP 551
Total FN 1040
Total Scores
MCC 0.202
Average MCC ± 95% Confidence Intervals 0.232 ± 0.116
Sensitivity 0.216
Positive Predictive Value 0.190
Nr of predictions 7

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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
CRW_00443 - 0.20 0.20 0.20 52 456224 251 42 172 37 208
CRW_00702 - 0.30 0.35 0.25 26 357333 263 32 44 187 49
CRW_00704 - 0.33 0.36 0.31 34 386650 255 25 51 179 60
CRW_00730 - 0.42 0.46 0.39 74 338884 207 22 96 89 87
CRW_00780 - 0.19 0.20 0.18 50 475527 242 42 181 19 205
CRW_00794 - 0.13 0.15 0.12 36 434484 283 53 205 25 210
CRW_00796 - 0.05 0.06 0.05 14 384732 272 52 205 15 221

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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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