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Table of contents:

  1. Overview

  2. Performance Plots

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

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

  5. Compile and download dataset for Carnac(seed) & ProbKnot [.zip] - may take several seconds...


Overview

Metric Carnac(seed) ProbKnot
MCC 0.729 > 0.689
Average MCC ± 95% Confidence Intervals 0.729 ± > 0.689 ±
Sensitivity 0.570 < 0.681
Positive Predictive Value 0.932 > 0.698
Total TP 261 < 312
Total TN 1085321 > 1085154
Total FP 35 < 184
Total FP CONTRA 6 < 22
Total FP INCONS 13 < 113
Total FP COMP 16 < 49
Total FN 197 > 146
P-value 0.0

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Performance plots


  1. Comparison of performance of Carnac(seed) and ProbKnot. 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 Carnac(seed) and ProbKnot).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for Carnac(seed) and ProbKnot. 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 Carnac(seed) and ProbKnot).

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Performance of Carnac(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for Carnac(seed)

Total Base Pair Counts
Total TP 261
Total TN 1085321
Total FP 35
Total FP CONTRA 6
Total FP INCONS 13
Total FP COMP 16
Total FN 197
Total Scores
MCC 0.729
Average MCC ± 95% Confidence Intervals 0.729 ±
Sensitivity 0.570
Positive Predictive Value 0.932
Nr of predictions 1

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00024

SSU_rRNA_archaea links to Rfam database...

0.73 0.57 0.93 261 1085321 35 6 13 16 197

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Performance of ProbKnot - scored lower in this pairwise comparison

1. Total counts & total scores for ProbKnot

Total Base Pair Counts
Total TP 312
Total TN 1085154
Total FP 184
Total FP CONTRA 22
Total FP INCONS 113
Total FP COMP 49
Total FN 146
Total Scores
MCC 0.689
Average MCC ± 95% Confidence Intervals 0.689 ±
Sensitivity 0.681
Positive Predictive Value 0.698
Nr of predictions 1

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00024

SSU_rRNA_archaea links to Rfam database...

0.69 0.68 0.70 312 1085154 184 22 113 49 146

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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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