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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of PETfold_2.0(20) - scored higher in this pairwise comparison

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

  5. Compile and download dataset for PETfold_2.0(20) & Contrafold [.zip] - may take several seconds...


Overview

Metric PETfold_2.0(20) Contrafold
MCC 0.905 > 0.725
Average MCC ± 95% Confidence Intervals 0.905 ± > 0.725 ±
Sensitivity 0.889 > 0.741
Positive Predictive Value 0.923 > 0.714
Total TP 24 > 20
Total TN 2630 > 2628
Total FP 11 < 16
Total FP CONTRA 0 = 0
Total FP INCONS 2 < 8
Total FP COMP 9 > 8
Total FN 3 < 7
P-value 0.0

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Performance plots


  1. Comparison of performance of PETfold_2.0(20) and Contrafold. 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(20) and Contrafold).

  2. Comparison of performance of PETfold_2.0(20) and Contrafold. 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(20) and Contrafold).

  3. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(20) and Contrafold. 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(20) and Contrafold).

  4. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(20) and Contrafold. 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(20) and Contrafold).

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Performance of PETfold_2.0(20) - scored higher in this pairwise comparison

1. Total counts & total scores for PETfold_2.0(20)

Total Base Pair Counts
Total TP 24
Total TN 2630
Total FP 11
Total FP CONTRA 0
Total FP INCONS 2
Total FP COMP 9
Total FN 3
Total Scores
MCC 0.905
Average MCC ± 95% Confidence Intervals 0.905 ±
Sensitivity 0.889
Positive Predictive Value 0.923
Nr of predictions 1

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2. Individual counts for PETfold_2.0(20) [ 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 11 0 2 9 3

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Performance of Contrafold - scored lower in this pairwise comparison

1. Total counts & total scores for Contrafold

Total Base Pair Counts
Total TP 20
Total TN 2628
Total FP 16
Total FP CONTRA 0
Total FP INCONS 8
Total FP COMP 8
Total FN 7
Total Scores
MCC 0.725
Average MCC ± 95% Confidence Intervals 0.725 ±
Sensitivity 0.741
Positive Predictive Value 0.714
Nr of predictions 1

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2. Individual counts for Contrafold [ 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...

0.72 0.74 0.71 20 2628 16 0 8 8 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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