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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 0.866 > 0.763
Average MCC ± 95% Confidence Intervals 0.868 ± 0.471 > 0.757 ± 1.312
Sensitivity 0.845 > 0.690
Positive Predictive Value 0.891 > 0.851
Total TP 49 > 40
Total TN 4279 < 4287
Total FP 19 > 11
Total FP CONTRA 2 > 1
Total FP INCONS 4 < 6
Total FP COMP 13 > 4
Total FN 9 < 18
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 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).

  3. 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).

  4. 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 49
Total TN 4279
Total FP 19
Total FP CONTRA 2
Total FP INCONS 4
Total FP COMP 13
Total FN 9
Total Scores
MCC 0.866
Average MCC ± 95% Confidence Intervals 0.868 ± 0.471
Sensitivity 0.845
Positive Predictive Value 0.891
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...

0.90 0.89 0.92 24 2630 14 0 2 12 3
3W1K_J

tRNA-Sec links to Rfam database...

0.83 0.81 0.86 25 1649 5 2 2 1 6

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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 40
Total TN 4287
Total FP 11
Total FP CONTRA 1
Total FP INCONS 6
Total FP COMP 4
Total FN 18
Total Scores
MCC 0.763
Average MCC ± 95% Confidence Intervals 0.757 ± 1.312
Sensitivity 0.690
Positive Predictive Value 0.851
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...

0.65 0.59 0.73 16 2634 10 0 6 4 11
3W1K_J

tRNA-Sec links to Rfam database...

0.86 0.77 0.96 24 1653 1 1 0 0 7

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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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