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Table of contents:

  1. Overview

  2. Performance Plots

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

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

  5. Compile and download dataset for PPfold(20) & PPfold(seed) [.zip] - may take several seconds...


Overview

Metric PPfold(20) PPfold(seed)
MCC 0.886 > 0.847
Average MCC ± 95% Confidence Intervals 0.886 ± > 0.847 ±
Sensitivity 0.842 > 0.782
Positive Predictive Value 0.934 > 0.919
Total TP 85 > 79
Total TN 45965 < 45970
Total FP 13 < 17
Total FP CONTRA 0 = 0
Total FP INCONS 6 < 7
Total FP COMP 7 < 10
Total FN 16 < 22
P-value 0.0

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Performance plots


  1. Comparison of performance of PPfold(20) and PPfold(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 PPfold(20) and PPfold(seed)).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for PPfold(20) and PPfold(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 PPfold(20) and PPfold(seed)).

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Performance of PPfold(20) - scored higher in this pairwise comparison

1. Total counts & total scores for PPfold(20)

Total Base Pair Counts
Total TP 85
Total TN 45965
Total FP 13
Total FP CONTRA 0
Total FP INCONS 6
Total FP COMP 7
Total FN 16
Total Scores
MCC 0.886
Average MCC ± 95% Confidence Intervals 0.886 ±
Sensitivity 0.842
Positive Predictive Value 0.934
Nr of predictions 1

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2. Individual counts for PPfold(20) [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
SRP_00182

Plant_SRP links to Rfam database...

0.89 0.84 0.93 85 45965 13 0 6 7 16

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Performance of PPfold(seed) - scored lower in this pairwise comparison

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

Total Base Pair Counts
Total TP 79
Total TN 45970
Total FP 17
Total FP CONTRA 0
Total FP INCONS 7
Total FP COMP 10
Total FN 22
Total Scores
MCC 0.847
Average MCC ± 95% Confidence Intervals 0.847 ±
Sensitivity 0.782
Positive Predictive Value 0.919
Nr of predictions 1

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
SRP_00182

Plant_SRP links to Rfam database...

0.85 0.78 0.92 79 45970 17 0 7 10 22

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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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