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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of ContextFold - scored higher in this pairwise comparison

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

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


Overview

Metric ContextFold Alterna
MCC 0.659 > 0.362
Average MCC ± 95% Confidence Intervals 0.688 ± 1.420 > 0.326 ± 1.837
Sensitivity 0.621 > 0.345
Positive Predictive Value 0.720 > 0.417
Total TP 18 > 10
Total TN 914 < 915
Total FP 8 < 15
Total FP CONTRA 0 < 3
Total FP INCONS 7 < 11
Total FP COMP 1 = 1
Total FN 11 < 19
P-value 0.0

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Performance plots


  1. Comparison of performance of ContextFold and Alterna. 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 ContextFold and Alterna).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for ContextFold and Alterna. 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 ContextFold and Alterna).

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Performance of ContextFold - scored higher in this pairwise comparison

1. Total counts & total scores for ContextFold

Total Base Pair Counts
Total TP 18
Total TN 914
Total FP 8
Total FP CONTRA 0
Total FP INCONS 7
Total FP COMP 1
Total FN 11
Total Scores
MCC 0.659
Average MCC ± 95% Confidence Intervals 0.688 ± 1.420
Sensitivity 0.621
Positive Predictive Value 0.720
Nr of predictions 2

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2. Individual counts for ContextFold [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
2LC8_A

GP_knot1 links to Rfam database...

0.58 0.56 0.63 10 512 6 0 6 0 8
3J0L_a - 0.80 0.73 0.89 8 402 2 0 1 1 3

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Performance of Alterna - scored lower in this pairwise comparison

1. Total counts & total scores for Alterna

Total Base Pair Counts
Total TP 10
Total TN 915
Total FP 15
Total FP CONTRA 3
Total FP INCONS 11
Total FP COMP 1
Total FN 19
Total Scores
MCC 0.362
Average MCC ± 95% Confidence Intervals 0.326 ± 1.837
Sensitivity 0.345
Positive Predictive Value 0.417
Nr of predictions 2

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2. Individual counts for Alterna [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
2LC8_A

GP_knot1 links to Rfam database...

0.47 0.44 0.53 8 513 7 0 7 0 10
3J0L_a - 0.18 0.18 0.22 2 402 8 3 4 1 9

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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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