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Table of contents:

  1. Overview

  2. Performance Plots

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

  4. Performance of Carnac(seed) - scored lower in this pairwise comparison

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


Overview

Metric UNAFold Carnac(seed)
MCC 0.770 > 0.729
Average MCC ± 95% Confidence Intervals 0.770 ± > 0.729 ±
Sensitivity 0.758 > 0.570
Positive Predictive Value 0.783 < 0.932
Total TP 347 > 261
Total TN 1085158 < 1085321
Total FP 132 > 35
Total FP CONTRA 19 > 6
Total FP INCONS 77 > 13
Total FP COMP 36 > 16
Total FN 111 < 197
P-value 0.0

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Performance plots


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

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

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Performance of UNAFold - scored higher in this pairwise comparison

1. Total counts & total scores for UNAFold

Total Base Pair Counts
Total TP 347
Total TN 1085158
Total FP 132
Total FP CONTRA 19
Total FP INCONS 77
Total FP COMP 36
Total FN 111
Total Scores
MCC 0.770
Average MCC ± 95% Confidence Intervals 0.770 ±
Sensitivity 0.758
Positive Predictive Value 0.783
Nr of predictions 1

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2. Individual counts for UNAFold [ 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...

0.77 0.76 0.78 347 1085158 132 19 77 36 111

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Performance of Carnac(seed) - scored lower 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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Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

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