Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of RDfolder
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & RDfolder [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
RDfolder |
|---|
| MCC |
0.736 |
>
|
0.586 |
| Average MCC ± 95% Confidence Intervals |
0.720
±
0.059
|
>
|
0.600
±
0.116
|
| Sensitivity |
0.661 |
>
|
0.509 |
| Positive Predictive Value |
0.823 |
>
|
0.682 |
| Total TP |
256 |
>
|
197 |
| Total TN |
44472 |
<
|
44494 |
| Total FP |
62 |
<
|
95 |
| Total FP CONTRA |
33 |
>
|
13 |
| Total FP INCONS |
22 |
<
|
79 |
| Total FP COMP |
7 |
>
|
3 |
| Total FN |
131 |
<
|
190 |
| P-value |
2.59578924681e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and RDfolder. 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 RDfolder).
-
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 RDfolder).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and RDfolder. 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 RDfolder).
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 |
256 |
| Total TN |
44472 |
| Total FP |
62 |
| Total FP CONTRA |
33 |
| Total FP INCONS |
22 |
| Total FP COMP |
7 |
| Total FN |
131 |
| Total Scores |
|---|
| MCC |
0.736 |
| Average MCC ± 95% Confidence Intervals |
0.720
±
0.059
|
| Sensitivity |
0.661 |
| Positive Predictive Value |
0.823 |
| Nr of predictions |
18 |
Performance of RDfolder
- scored lower in this pairwise comparison
1. Total counts & total scores for RDfolder
| Total Base Pair Counts |
|---|
| Total TP |
197 |
| Total TN |
44494 |
| Total FP |
95 |
| Total FP CONTRA |
13 |
| Total FP INCONS |
79 |
| Total FP COMP |
3 |
| Total FN |
190 |
| Total Scores |
|---|
| MCC |
0.586 |
| Average MCC ± 95% Confidence Intervals |
0.600
±
0.116
|
| Sensitivity |
0.509 |
| Positive Predictive Value |
0.682 |
| Nr of predictions |
18 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
