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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 IPknot - scored lower in this pairwise comparison

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


Overview

Metric PETfold_2.0(20) IPknot
MCC 0.647 > 0.401
Average MCC ± 95% Confidence Intervals 0.647 ± > 0.401 ±
Sensitivity 0.509 > 0.298
Positive Predictive Value 0.829 > 0.548
Total TP 29 > 17
Total TN 6986 < 6990
Total FP 6 < 14
Total FP CONTRA 1 > 0
Total FP INCONS 5 < 14
Total FP COMP 0 = 0
Total FN 28 < 40
P-value 0.0

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Performance plots


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

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

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

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

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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 29
Total TN 6986
Total FP 6
Total FP CONTRA 1
Total FP INCONS 5
Total FP COMP 0
Total FN 28
Total Scores
MCC 0.647
Average MCC ± 95% Confidence Intervals 0.647 ±
Sensitivity 0.509
Positive Predictive Value 0.829
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...

0.65 0.51 0.83 29 6986 6 1 5 0 28

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Performance of IPknot - scored lower in this pairwise comparison

1. Total counts & total scores for IPknot

Total Base Pair Counts
Total TP 17
Total TN 6990
Total FP 14
Total FP CONTRA 0
Total FP INCONS 14
Total FP COMP 0
Total FN 40
Total Scores
MCC 0.401
Average MCC ± 95% Confidence Intervals 0.401 ±
Sensitivity 0.298
Positive Predictive Value 0.548
Nr of predictions 1

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2. Individual counts for IPknot [ 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...

0.40 0.30 0.55 17 6990 14 0 14 0 40

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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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