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 PETfold_2.0(seed) - scored higher in this pairwise comparison

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

  5. Compile and download dataset for PETfold_2.0(seed) & Mastr(seed) [.zip] - may take several seconds...


Overview

Metric PETfold_2.0(seed) Mastr(seed)
MCC 0.866 > 0.000
Average MCC ± 95% Confidence Intervals 0.868 ± 0.471 > 0.000 ± 0.000
Sensitivity 0.845 > 0.000
Positive Predictive Value 0.891 > 0.000
Total TP 49 > 0
Total TN 4279 < 4334
Total FP 19 > 0
Total FP CONTRA 2 > 0
Total FP INCONS 4 > 0
Total FP COMP 13 > 0
Total FN 9 < 58
P-value 0.0

^top



Performance plots


  1. Comparison of performance of PETfold_2.0(seed) and Mastr(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 PETfold_2.0(seed) and Mastr(seed)).

  2. Comparison of performance of PETfold_2.0(seed) and Mastr(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 PETfold_2.0(seed) and Mastr(seed)).

  3. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(seed) and Mastr(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 PETfold_2.0(seed) and Mastr(seed)).

  4. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(seed) and Mastr(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 PETfold_2.0(seed) and Mastr(seed)).

^top




Performance of PETfold_2.0(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for PETfold_2.0(seed)

Total Base Pair Counts
Total TP 49
Total TN 4279
Total FP 19
Total FP CONTRA 2
Total FP INCONS 4
Total FP COMP 13
Total FN 9
Total Scores
MCC 0.866
Average MCC ± 95% Confidence Intervals 0.868 ± 0.471
Sensitivity 0.845
Positive Predictive Value 0.891
Nr of predictions 2

^top


2. Individual counts for PETfold_2.0(seed) [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.90 0.89 0.92 24 2630 14 0 2 12 3
3W1K_J

tRNA-Sec links to Rfam database...

0.83 0.81 0.86 25 1649 5 2 2 1 6

^top


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

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

Total Base Pair Counts
Total TP 0
Total TN 4334
Total FP 0
Total FP CONTRA 0
Total FP INCONS 0
Total FP COMP 0
Total FN 58
Total Scores
MCC 0.000
Average MCC ± 95% Confidence Intervals 0.000 ± 0.000
Sensitivity 0.000
Positive Predictive Value 0.000
Nr of predictions 2

^top


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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.00 0.00 0.00 0 2656 0 0 0 0 27
3W1K_J

tRNA-Sec links to Rfam database...

0.00 0.00 0.00 0 1678 0 0 0 0 31

^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