Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of PPfold(20)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & PPfold(20) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
PPfold(20) |
|---|
| MCC |
0.716 |
>
|
0.649 |
| Average MCC ± 95% Confidence Intervals |
0.692
±
0.083
|
>
|
0.622
±
0.125
|
| Sensitivity |
0.595 |
>
|
0.517 |
| Positive Predictive Value |
0.864 |
>
|
0.819 |
| Total TP |
375 |
>
|
326 |
| Total TN |
103740 |
<
|
103776 |
| Total FP |
85 |
<
|
93 |
| Total FP CONTRA |
4 |
>
|
0 |
| Total FP INCONS |
55 |
<
|
72 |
| Total FP COMP |
26 |
>
|
21 |
| Total FN |
255 |
<
|
304 |
| P-value |
2.32677072069e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and PPfold(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 PETfold_pre2.0(seed)
and PPfold(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 PETfold_pre2.0(seed)
and PPfold(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and PPfold(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 PETfold_pre2.0(seed)
and PPfold(20)).
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 |
375 |
| Total TN |
103740 |
| Total FP |
85 |
| Total FP CONTRA |
4 |
| Total FP INCONS |
55 |
| Total FP COMP |
26 |
| Total FN |
255 |
| Total Scores |
|---|
| MCC |
0.716 |
| Average MCC ± 95% Confidence Intervals |
0.692
±
0.083
|
| Sensitivity |
0.595 |
| Positive Predictive Value |
0.864 |
| Nr of predictions |
17 |
Performance of PPfold(20)
- scored lower in this pairwise comparison
1. Total counts & total scores for PPfold(20)
| Total Base Pair Counts |
|---|
| Total TP |
326 |
| Total TN |
103776 |
| Total FP |
93 |
| Total FP CONTRA |
0 |
| Total FP INCONS |
72 |
| Total FP COMP |
21 |
| Total FN |
304 |
| Total Scores |
|---|
| MCC |
0.649 |
| Average MCC ± 95% Confidence Intervals |
0.622
±
0.125
|
| Sensitivity |
0.517 |
| Positive Predictive Value |
0.819 |
| Nr of predictions |
17 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
