Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of RNAalifold(seed)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & RNAalifold(seed) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
RNAalifold(seed) |
|---|
| MCC |
0.710 |
>
|
0.657 |
| Average MCC ± 95% Confidence Intervals |
0.698
±
0.054
|
>
|
0.648
±
0.047
|
| Sensitivity |
0.626 |
>
|
0.522 |
| Positive Predictive Value |
0.809 |
<
|
0.833 |
| Total TP |
246 |
>
|
205 |
| Total TN |
48826 |
<
|
48884 |
| Total FP |
65 |
>
|
44 |
| Total FP CONTRA |
31 |
>
|
10 |
| Total FP INCONS |
27 |
<
|
31 |
| Total FP COMP |
7 |
>
|
3 |
| Total FN |
147 |
<
|
188 |
| P-value |
1.95070920198e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and RNAalifold(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 RNAalifold(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 RNAalifold(seed)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and RNAalifold(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 RNAalifold(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 |
246 |
| Total TN |
48826 |
| Total FP |
65 |
| Total FP CONTRA |
31 |
| Total FP INCONS |
27 |
| Total FP COMP |
7 |
| Total FN |
147 |
| Total Scores |
|---|
| MCC |
0.710 |
| Average MCC ± 95% Confidence Intervals |
0.698
±
0.054
|
| Sensitivity |
0.626 |
| Positive Predictive Value |
0.809 |
| Nr of predictions |
17 |
Performance of RNAalifold(seed)
- scored lower in this pairwise comparison
1. Total counts & total scores for RNAalifold(seed)
| Total Base Pair Counts |
|---|
| Total TP |
205 |
| Total TN |
48884 |
| Total FP |
44 |
| Total FP CONTRA |
10 |
| Total FP INCONS |
31 |
| Total FP COMP |
3 |
| Total FN |
188 |
| Total Scores |
|---|
| MCC |
0.657 |
| Average MCC ± 95% Confidence Intervals |
0.648
±
0.047
|
| Sensitivity |
0.522 |
| Positive Predictive Value |
0.833 |
| Nr of predictions |
17 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
