Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of Afold
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & Afold [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
Afold |
|---|
| MCC |
0.719 |
>
|
0.481 |
| Average MCC ± 95% Confidence Intervals |
0.705
±
0.067
|
>
|
0.474
±
0.160
|
| Sensitivity |
0.640 |
>
|
0.451 |
| Positive Predictive Value |
0.812 |
>
|
0.521 |
| Total TP |
224 |
>
|
158 |
| Total TN |
45112 |
>
|
45085 |
| Total FP |
58 |
<
|
167 |
| Total FP CONTRA |
26 |
>
|
22 |
| Total FP INCONS |
26 |
<
|
123 |
| Total FP COMP |
6 |
<
|
22 |
| Total FN |
126 |
<
|
192 |
| P-value |
2.86595104665e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and Afold. 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_pre2.0(seed)
and Afold).
-
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 PETfold_pre2.0(seed)
and Afold).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and Afold. 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_pre2.0(seed)
and Afold).
Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
1. Total counts & total scores for PETfold_pre2.0(seed)
| Total Base Pair Counts |
|---|
| Total TP |
224 |
| Total TN |
45112 |
| Total FP |
58 |
| Total FP CONTRA |
26 |
| Total FP INCONS |
26 |
| Total FP COMP |
6 |
| Total FN |
126 |
| Total Scores |
|---|
| MCC |
0.719 |
| Average MCC ± 95% Confidence Intervals |
0.705
±
0.067
|
| Sensitivity |
0.640 |
| Positive Predictive Value |
0.812 |
| Nr of predictions |
15 |
Performance of Afold
- scored lower in this pairwise comparison
1. Total counts & total scores for Afold
| Total Base Pair Counts |
|---|
| Total TP |
158 |
| Total TN |
45085 |
| Total FP |
167 |
| Total FP CONTRA |
22 |
| Total FP INCONS |
123 |
| Total FP COMP |
22 |
| Total FN |
192 |
| Total Scores |
|---|
| MCC |
0.481 |
| Average MCC ± 95% Confidence Intervals |
0.474
±
0.160
|
| Sensitivity |
0.451 |
| Positive Predictive Value |
0.521 |
| Nr of predictions |
15 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
