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 RNAsubopt - scored higher in this pairwise comparison

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

  5. Compile and download dataset for RNAsubopt & Cylofold [.zip] - may take several seconds...


Overview

Metric RNAsubopt Cylofold
MCC 0.437 > 0.271
Average MCC ± 95% Confidence Intervals 0.435 ± 0.583 > 0.275 ± 1.303
Sensitivity 0.431 > 0.241
Positive Predictive Value 0.447 > 0.308
Total TP 59 > 33
Total TN 60456 < 60481
Total FP 86 > 78
Total FP CONTRA 5 > 3
Total FP INCONS 68 < 71
Total FP COMP 13 > 4
Total FN 78 < 104
P-value 0.0

^top



Performance plots


  1. Comparison of performance of RNAsubopt and Cylofold. 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 RNAsubopt and Cylofold).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for RNAsubopt and Cylofold. 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 RNAsubopt and Cylofold).

^top




Performance of RNAsubopt - scored higher in this pairwise comparison

1. Total counts & total scores for RNAsubopt

Total Base Pair Counts
Total TP 59
Total TN 60456
Total FP 86
Total FP CONTRA 5
Total FP INCONS 68
Total FP COMP 13
Total FN 78
Total Scores
MCC 0.437
Average MCC ± 95% Confidence Intervals 0.435 ± 0.583
Sensitivity 0.431
Positive Predictive Value 0.447
Nr of predictions 2

^top


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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
ASE_00408 - 0.48 0.48 0.49 34 32315 41 2 34 5 37
ASE_00429 - 0.39 0.38 0.40 25 28141 45 3 34 8 41

^top


Performance of Cylofold - scored lower in this pairwise comparison

1. Total counts & total scores for Cylofold

Total Base Pair Counts
Total TP 33
Total TN 60481
Total FP 78
Total FP CONTRA 3
Total FP INCONS 71
Total FP COMP 4
Total FN 104
Total Scores
MCC 0.271
Average MCC ± 95% Confidence Intervals 0.275 ± 1.303
Sensitivity 0.241
Positive Predictive Value 0.308
Nr of predictions 2

^top


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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
ASE_00408 - 0.17 0.15 0.20 11 32329 45 3 42 0 60
ASE_00429 - 0.38 0.33 0.43 22 28152 33 0 29 4 44

^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