Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of Carnac(20)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & Carnac(20) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
Carnac(20) |
|---|
| MCC |
0.719 |
>
|
0.547 |
| Average MCC ± 95% Confidence Intervals |
0.696
±
0.078
|
>
|
0.477
±
0.132
|
| Sensitivity |
0.597 |
>
|
0.351 |
| Positive Predictive Value |
0.870 |
>
|
0.858 |
| Total TP |
410 |
>
|
241 |
| Total TN |
110724 |
<
|
110914 |
| Total FP |
88 |
>
|
47 |
| Total FP CONTRA |
4 |
>
|
2 |
| Total FP INCONS |
57 |
>
|
38 |
| Total FP COMP |
27 |
>
|
7 |
| Total FN |
277 |
<
|
446 |
| P-value |
6.99051034341e-09 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and Carnac(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 Carnac(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 Carnac(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and Carnac(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 Carnac(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 |
410 |
| Total TN |
110724 |
| Total FP |
88 |
| Total FP CONTRA |
4 |
| Total FP INCONS |
57 |
| Total FP COMP |
27 |
| Total FN |
277 |
| Total Scores |
|---|
| MCC |
0.719 |
| Average MCC ± 95% Confidence Intervals |
0.696
±
0.078
|
| Sensitivity |
0.597 |
| Positive Predictive Value |
0.870 |
| Nr of predictions |
18 |
Performance of Carnac(20)
- scored lower in this pairwise comparison
1. Total counts & total scores for Carnac(20)
| Total Base Pair Counts |
|---|
| Total TP |
241 |
| Total TN |
110914 |
| Total FP |
47 |
| Total FP CONTRA |
2 |
| Total FP INCONS |
38 |
| Total FP COMP |
7 |
| Total FN |
446 |
| Total Scores |
|---|
| MCC |
0.547 |
| Average MCC ± 95% Confidence Intervals |
0.477
±
0.132
|
| Sensitivity |
0.351 |
| Positive Predictive Value |
0.858 |
| Nr of predictions |
18 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
