Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of RSpredict(seed)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & RSpredict(seed) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
RSpredict(seed) |
|---|
| MCC |
0.853 |
>
|
0.515 |
| Average MCC ± 95% Confidence Intervals |
0.833
±
0.059
|
>
|
0.143
±
0.097
|
| Sensitivity |
0.822 |
>
|
0.388 |
| Positive Predictive Value |
0.885 |
>
|
0.686 |
| Total TP |
1014 |
>
|
478 |
| Total TN |
631225 |
<
|
631674 |
| Total FP |
344 |
>
|
312 |
| Total FP CONTRA |
42 |
<
|
43 |
| Total FP INCONS |
90 |
<
|
176 |
| Total FP COMP |
212 |
>
|
93 |
| Total FN |
219 |
<
|
755 |
| P-value |
5.23657817852e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and RSpredict(seed). 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 RSpredict(seed)).
-
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 RSpredict(seed)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and RSpredict(seed). 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 RSpredict(seed)).
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 |
1014 |
| Total TN |
631225 |
| Total FP |
344 |
| Total FP CONTRA |
42 |
| Total FP INCONS |
90 |
| Total FP COMP |
212 |
| Total FN |
219 |
| Total Scores |
|---|
| MCC |
0.853 |
| Average MCC ± 95% Confidence Intervals |
0.833
±
0.059
|
| Sensitivity |
0.822 |
| Positive Predictive Value |
0.885 |
| Nr of predictions |
26 |
Performance of RSpredict(seed)
- scored lower in this pairwise comparison
1. Total counts & total scores for RSpredict(seed)
| Total Base Pair Counts |
|---|
| Total TP |
478 |
| Total TN |
631674 |
| Total FP |
312 |
| Total FP CONTRA |
43 |
| Total FP INCONS |
176 |
| Total FP COMP |
93 |
| Total FN |
755 |
| Total Scores |
|---|
| MCC |
0.515 |
| Average MCC ± 95% Confidence Intervals |
0.143
±
0.097
|
| Sensitivity |
0.388 |
| Positive Predictive Value |
0.686 |
| Nr of predictions |
26 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
