CompaRNA - on-line benchmarks of RNA structure prediction methods
Home

Methods
Datasets
Rankings
RNA 2D Atlas

Help
FAQ

Contact us
RSS feeds
Twitter

Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric MXScarna(20) PPfold(seed)
MCC 0.879 > 0.847
Average MCC ± 95% Confidence Intervals 0.879 ± > 0.847 ±
Sensitivity 0.861 > 0.782
Positive Predictive Value 0.897 < 0.919
Total TP 87 > 79
Total TN 45959 < 45970
Total FP 19 > 17
Total FP CONTRA 0 = 0
Total FP INCONS 10 > 7
Total FP COMP 9 < 10
Total FN 14 < 22
P-value 0.0

^top



Performance plots


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

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

^top




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

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

Total Base Pair Counts
Total TP 87
Total TN 45959
Total FP 19
Total FP CONTRA 0
Total FP INCONS 10
Total FP COMP 9
Total FN 14
Total Scores
MCC 0.879
Average MCC ± 95% Confidence Intervals 0.879 ±
Sensitivity 0.861
Positive Predictive Value 0.897
Nr of predictions 1

^top


2. Individual counts for MXScarna(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...

0.88 0.86 0.90 87 45959 19 0 10 9 14

^top


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

^top


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

^top

Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

Copyright© - Adam Mickiewicz University & IIMCB - All rights reserved