Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of MCFold
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & MCFold [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
MCFold |
|---|
| MCC |
0.739 |
>
|
0.336 |
| Average MCC ± 95% Confidence Intervals |
0.722
±
0.063
|
>
|
0.346
±
0.092
|
| Sensitivity |
0.663 |
>
|
0.387 |
| Positive Predictive Value |
0.829 |
>
|
0.303 |
| Total TP |
238 |
>
|
139 |
| Total TN |
40401 |
>
|
40229 |
| Total FP |
56 |
<
|
357 |
| Total FP CONTRA |
31 |
<
|
53 |
| Total FP INCONS |
18 |
<
|
267 |
| Total FP COMP |
7 |
<
|
37 |
| Total FN |
121 |
<
|
220 |
| P-value |
3.36130997681e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and MCFold. 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 MCFold).
-
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 MCFold).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and MCFold. 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 MCFold).
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 |
238 |
| Total TN |
40401 |
| Total FP |
56 |
| Total FP CONTRA |
31 |
| Total FP INCONS |
18 |
| Total FP COMP |
7 |
| Total FN |
121 |
| Total Scores |
|---|
| MCC |
0.739 |
| Average MCC ± 95% Confidence Intervals |
0.722
±
0.063
|
| Sensitivity |
0.663 |
| Positive Predictive Value |
0.829 |
| Nr of predictions |
17 |
Performance of MCFold
- scored lower in this pairwise comparison
1. Total counts & total scores for MCFold
| Total Base Pair Counts |
|---|
| Total TP |
139 |
| Total TN |
40229 |
| Total FP |
357 |
| Total FP CONTRA |
53 |
| Total FP INCONS |
267 |
| Total FP COMP |
37 |
| Total FN |
220 |
| Total Scores |
|---|
| MCC |
0.336 |
| Average MCC ± 95% Confidence Intervals |
0.346
±
0.092
|
| Sensitivity |
0.387 |
| Positive Predictive Value |
0.303 |
| Nr of predictions |
17 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
