Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
- Performance of RSpredict(20)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(20) & RSpredict(20) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(20) |
|
RSpredict(20) |
|---|
| MCC |
0.631 |
>
|
0.496 |
| Average MCC ± 95% Confidence Intervals |
0.628
±
0.114
|
>
|
0.473
±
0.117
|
| Sensitivity |
0.496 |
>
|
0.365 |
| Positive Predictive Value |
0.804 |
>
|
0.675 |
| Total TP |
539 |
>
|
397 |
| Total TN |
532705 |
<
|
532787 |
| Total FP |
160 |
<
|
212 |
| Total FP CONTRA |
8 |
<
|
21 |
| Total FP INCONS |
123 |
<
|
170 |
| Total FP COMP |
29 |
>
|
21 |
| Total FN |
548 |
<
|
690 |
| P-value |
3.30280588002e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(20) and RSpredict(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(20)
and RSpredict(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(20)
and RSpredict(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and RSpredict(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(20)
and RSpredict(20)).
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 |
539 |
| Total TN |
532705 |
| Total FP |
160 |
| Total FP CONTRA |
8 |
| Total FP INCONS |
123 |
| Total FP COMP |
29 |
| Total FN |
548 |
| Total Scores |
|---|
| MCC |
0.631 |
| Average MCC ± 95% Confidence Intervals |
0.628
±
0.114
|
| Sensitivity |
0.496 |
| Positive Predictive Value |
0.804 |
| Nr of predictions |
18 |
Performance of RSpredict(20)
- scored lower in this pairwise comparison
1. Total counts & total scores for RSpredict(20)
| Total Base Pair Counts |
|---|
| Total TP |
397 |
| Total TN |
532787 |
| Total FP |
212 |
| Total FP CONTRA |
21 |
| Total FP INCONS |
170 |
| Total FP COMP |
21 |
| Total FN |
690 |
| Total Scores |
|---|
| MCC |
0.496 |
| Average MCC ± 95% Confidence Intervals |
0.473
±
0.117
|
| Sensitivity |
0.365 |
| Positive Predictive Value |
0.675 |
| Nr of predictions |
18 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
