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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of PETfold_2.0(seed) - scored higher in this pairwise comparison

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

  5. Compile and download dataset for PETfold_2.0(seed) & McQFold [.zip] - may take several seconds...


Overview

Metric PETfold_2.0(seed) McQFold
MCC 0.769 > 0.616
Average MCC ± 95% Confidence Intervals 0.771 ± 0.133 > 0.634 ± 1.818
Sensitivity 0.642 > 0.453
Positive Predictive Value 0.924 > 0.843
Total TP 61 > 43
Total TN 11141 < 11156
Total FP 7 < 8
Total FP CONTRA 1 = 1
Total FP INCONS 4 < 7
Total FP COMP 2 > 0
Total FN 34 < 52
P-value 0.0

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Performance plots


  1. Comparison of performance of PETfold_2.0(seed) 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 PETfold_2.0(seed) and McQFold).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(seed) 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 PETfold_2.0(seed) and McQFold).

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Performance of PETfold_2.0(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for PETfold_2.0(seed)

Total Base Pair Counts
Total TP 61
Total TN 11141
Total FP 7
Total FP CONTRA 1
Total FP INCONS 4
Total FP COMP 2
Total FN 34
Total Scores
MCC 0.769
Average MCC ± 95% Confidence Intervals 0.771 ± 0.133
Sensitivity 0.642
Positive Predictive Value 0.924
Nr of predictions 2

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2. Individual counts for PETfold_2.0(seed) [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.76 0.61 0.95 35 6984 3 0 2 1 22
3W1K_J

tRNA-Sec links to Rfam database...

0.78 0.68 0.90 26 4157 4 1 2 1 12

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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 43
Total TN 11156
Total FP 8
Total FP CONTRA 1
Total FP INCONS 7
Total FP COMP 0
Total FN 52
Total Scores
MCC 0.616
Average MCC ± 95% Confidence Intervals 0.634 ± 1.818
Sensitivity 0.453
Positive Predictive Value 0.843
Nr of predictions 2

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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
3J3V_B

5S_rRNA links to Rfam database...

0.49 0.33 0.73 19 6995 7 0 7 0 38
3W1K_J

tRNA-Sec links to Rfam database...

0.78 0.63 0.96 24 4161 1 1 0 0 14

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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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