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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 0.274 > 0.171
Average MCC ± 95% Confidence Intervals 0.354 ± 0.270 > 0.201 ± 0.108
Sensitivity 0.252 > 0.182
Positive Predictive Value 0.300 > 0.161
Total TP 293 > 212
Total TN 2495289 > 2494950
Total FP 1029 < 1566
Total FP CONTRA 130 < 246
Total FP INCONS 554 < 858
Total FP COMP 345 < 462
Total FN 872 < 953
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 293
Total TN 2495289
Total FP 1029
Total FP CONTRA 130
Total FP INCONS 554
Total FP COMP 345
Total FN 872
Total Scores
MCC 0.274
Average MCC ± 95% Confidence Intervals 0.354 ± 0.270
Sensitivity 0.252
Positive Predictive Value 0.300
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_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_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 212
Total TN 2494950
Total FP 1566
Total FP CONTRA 246
Total FP INCONS 858
Total FP COMP 462
Total FN 953
Total Scores
MCC 0.171
Average MCC ± 95% Confidence Intervals 0.201 ± 0.108
Sensitivity 0.182
Positive Predictive Value 0.161
Nr of predictions 6

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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_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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