Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of RNAsubopt
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & RNAsubopt [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
RNAsubopt |
|---|
| MCC |
0.722 |
>
|
0.525 |
| Average MCC ± 95% Confidence Intervals |
0.699
±
0.062
|
>
|
0.508
±
0.105
|
| Sensitivity |
0.595 |
>
|
0.466 |
| Positive Predictive Value |
0.879 |
>
|
0.599 |
| Total TP |
547 |
>
|
428 |
| Total TN |
135398 |
>
|
135305 |
| Total FP |
106 |
<
|
343 |
| Total FP CONTRA |
8 |
<
|
29 |
| Total FP INCONS |
67 |
<
|
258 |
| Total FP COMP |
31 |
<
|
56 |
| Total FN |
372 |
<
|
491 |
| P-value |
5.1503931209e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and RNAsubopt. 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 RNAsubopt).
-
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 RNAsubopt).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and RNAsubopt. 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 RNAsubopt).
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 |
547 |
| Total TN |
135398 |
| Total FP |
106 |
| Total FP CONTRA |
8 |
| Total FP INCONS |
67 |
| Total FP COMP |
31 |
| Total FN |
372 |
| Total Scores |
|---|
| MCC |
0.722 |
| Average MCC ± 95% Confidence Intervals |
0.699
±
0.062
|
| Sensitivity |
0.595 |
| Positive Predictive Value |
0.879 |
| Nr of predictions |
25 |
Performance of RNAsubopt
- scored lower in this pairwise comparison
1. Total counts & total scores for RNAsubopt
| Total Base Pair Counts |
|---|
| Total TP |
428 |
| Total TN |
135305 |
| Total FP |
343 |
| Total FP CONTRA |
29 |
| Total FP INCONS |
258 |
| Total FP COMP |
56 |
| Total FN |
491 |
| Total Scores |
|---|
| MCC |
0.525 |
| Average MCC ± 95% Confidence Intervals |
0.508
±
0.105
|
| Sensitivity |
0.466 |
| Positive Predictive Value |
0.599 |
| Nr of predictions |
25 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
