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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 CRWrnafold - scored lower in this pairwise comparison

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


Overview

Metric McQFold CRWrnafold
MCC 0.274 > 0.257
Average MCC ± 95% Confidence Intervals 0.354 ± 0.270 > 0.313 ± 0.269
Sensitivity 0.252 < 0.264
Positive Predictive Value 0.300 > 0.251
Total TP 293 < 307
Total TN 2495289 > 2495042
Total FP 1029 < 1264
Total FP CONTRA 130 < 202
Total FP INCONS 554 < 715
Total FP COMP 345 < 347
Total FN 872 > 858
P-value 0.0

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Performance plots


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

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

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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 CRWrnafold - scored lower in this pairwise comparison

1. Total counts & total scores for CRWrnafold

Total Base Pair Counts
Total TP 307
Total TN 2495042
Total FP 1264
Total FP CONTRA 202
Total FP INCONS 715
Total FP COMP 347
Total FN 858
Total Scores
MCC 0.257
Average MCC ± 95% Confidence Intervals 0.313 ± 0.269
Sensitivity 0.264
Positive Predictive Value 0.251
Nr of predictions 6

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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_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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Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

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