Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
- Performance of Alterna
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(20) & Alterna [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(20) |
|
Alterna |
|---|
| MCC |
0.854 |
>
|
0.656 |
| Average MCC ± 95% Confidence Intervals |
0.858
±
0.048
|
>
|
0.669
±
0.244
|
| Sensitivity |
0.759 |
>
|
0.602 |
| Positive Predictive Value |
0.962 |
>
|
0.721 |
| Total TP |
101 |
>
|
80 |
| Total TN |
14628 |
>
|
14622 |
| Total FP |
12 |
<
|
33 |
| Total FP CONTRA |
3 |
<
|
9 |
| Total FP INCONS |
1 |
<
|
22 |
| Total FP COMP |
8 |
>
|
2 |
| Total FN |
32 |
<
|
53 |
| P-value |
0.0 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(20) and Alterna. 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(20)
and Alterna).
-
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(20)
and Alterna).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and Alterna. 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(20)
and Alterna).
Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
1. Total counts & total scores for PETfold_pre2.0(20)
| Total Base Pair Counts |
|---|
| Total TP |
101 |
| Total TN |
14628 |
| Total FP |
12 |
| Total FP CONTRA |
3 |
| Total FP INCONS |
1 |
| Total FP COMP |
8 |
| Total FN |
32 |
| Total Scores |
|---|
| MCC |
0.854 |
| Average MCC ± 95% Confidence Intervals |
0.858
±
0.048
|
| Sensitivity |
0.759 |
| Positive Predictive Value |
0.962 |
| Nr of predictions |
5 |
Performance of Alterna
- scored lower in this pairwise comparison
1. Total counts & total scores for Alterna
| Total Base Pair Counts |
|---|
| Total TP |
80 |
| Total TN |
14622 |
| Total FP |
33 |
| Total FP CONTRA |
9 |
| Total FP INCONS |
22 |
| Total FP COMP |
2 |
| Total FN |
53 |
| Total Scores |
|---|
| MCC |
0.656 |
| Average MCC ± 95% Confidence Intervals |
0.669
±
0.244
|
| Sensitivity |
0.602 |
| Positive Predictive Value |
0.721 |
| Nr of predictions |
5 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
