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 |
0.886 |
>
|
0.783 |
| Average MCC ± 95% Confidence Intervals |
0.848
±
0.071
|
>
|
0.729
±
0.138
|
| Sensitivity |
0.856 |
>
|
0.749 |
| Positive Predictive Value |
0.919 |
>
|
0.823 |
| Total TP |
351 |
>
|
307 |
| Total TN |
39362 |
<
|
39371 |
| Total FP |
109 |
<
|
112 |
| Total FP CONTRA |
11 |
<
|
12 |
| Total FP INCONS |
20 |
<
|
54 |
| Total FP COMP |
78 |
>
|
46 |
| Total FN |
59 |
<
|
103 |
| P-value |
3.16042554876e-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 |
351 |
| Total TN |
39362 |
| Total FP |
109 |
| Total FP CONTRA |
11 |
| Total FP INCONS |
20 |
| Total FP COMP |
78 |
| Total FN |
59 |
| Total Scores |
|---|
| MCC |
0.886 |
| Average MCC ± 95% Confidence Intervals |
0.848
±
0.071
|
| Sensitivity |
0.856 |
| Positive Predictive Value |
0.919 |
| 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 |
307 |
| Total TN |
39371 |
| Total FP |
112 |
| Total FP CONTRA |
12 |
| Total FP INCONS |
54 |
| Total FP COMP |
46 |
| Total FN |
103 |
| Total Scores |
|---|
| MCC |
0.783 |
| Average MCC ± 95% Confidence Intervals |
0.729
±
0.138
|
| Sensitivity |
0.749 |
| Positive Predictive Value |
0.823 |
| Nr of predictions |
17 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
