Table of contents:
- Overview
- Performance Plots
- Performance of Contrafold
- scored higher in this pairwise comparison
- Performance of Multilign(20)
- scored lower in this pairwise comparison
- Compile and download dataset for Contrafold & Multilign(20) [.zip] - may take several seconds...
Overview
| Metric |
Contrafold |
|
Multilign(20) |
|---|
| MCC |
0.539 |
>
|
0.534 |
| Average MCC ± 95% Confidence Intervals |
0.548
±
0.112
|
>
|
0.527
±
0.121
|
| Sensitivity |
0.479 |
>
|
0.449 |
| Positive Predictive Value |
0.614 |
<
|
0.642 |
| Total TP |
326 |
>
|
306 |
| Total TN |
98577 |
<
|
98631 |
| Total FP |
252 |
>
|
195 |
| Total FP CONTRA |
21 |
>
|
18 |
| Total FP INCONS |
184 |
>
|
153 |
| Total FP COMP |
47 |
>
|
24 |
| Total FN |
355 |
<
|
375 |
| P-value |
0.00064555593904 |
Performance plots
-
Comparison of performance of Contrafold and Multilign(20). 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 Contrafold
and Multilign(20)).
-
Average Matthews Correlation Coefficients (MCC) with 95% confidence intervals (CIs) were plotted for different RNA families, for which at least 3 members were present in the benchmarking dataset. 'n' denotes the number of MCCs used to calculate the average and CI. See tables below for raw data
(individual counts for Contrafold
and Multilign(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for Contrafold and Multilign(20). 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 Contrafold
and Multilign(20)).
Performance of Contrafold
- scored higher in this pairwise comparison
1. Total counts & total scores for Contrafold
| Total Base Pair Counts |
|---|
| Total TP |
326 |
| Total TN |
98577 |
| Total FP |
252 |
| Total FP CONTRA |
21 |
| Total FP INCONS |
184 |
| Total FP COMP |
47 |
| Total FN |
355 |
| Total Scores |
|---|
| MCC |
0.539 |
| Average MCC ± 95% Confidence Intervals |
0.548
±
0.112
|
| Sensitivity |
0.479 |
| Positive Predictive Value |
0.614 |
| Nr of predictions |
19 |
Performance of Multilign(20)
- scored lower in this pairwise comparison
1. Total counts & total scores for Multilign(20)
| Total Base Pair Counts |
|---|
| Total TP |
306 |
| Total TN |
98631 |
| Total FP |
195 |
| Total FP CONTRA |
18 |
| Total FP INCONS |
153 |
| Total FP COMP |
24 |
| Total FN |
375 |
| Total Scores |
|---|
| MCC |
0.534 |
| Average MCC ± 95% Confidence Intervals |
0.527
±
0.121
|
| Sensitivity |
0.449 |
| Positive Predictive Value |
0.642 |
| Nr of predictions |
19 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
