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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric RNAalifold(20) PPfold(seed)
MCC 0.886 > 0.847
Average MCC ± 95% Confidence Intervals 0.886 ± > 0.847 ±
Sensitivity 0.832 > 0.782
Positive Predictive Value 0.944 > 0.919
Total TP 84 > 79
Total TN 45967 < 45970
Total FP 7 < 17
Total FP CONTRA 0 = 0
Total FP INCONS 5 < 7
Total FP COMP 2 < 10
Total FN 17 < 22
P-value 0.0

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Performance plots


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

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

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

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

Total Base Pair Counts
Total TP 84
Total TN 45967
Total FP 7
Total FP CONTRA 0
Total FP INCONS 5
Total FP COMP 2
Total FN 17
Total Scores
MCC 0.886
Average MCC ± 95% Confidence Intervals 0.886 ±
Sensitivity 0.832
Positive Predictive Value 0.944
Nr of predictions 1

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2. Individual counts for RNAalifold(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 0.83 0.94 84 45967 7 0 5 2 17

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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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