Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
- Performance of CMfinder(20)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(20) & CMfinder(20) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(20) |
|
CMfinder(20) |
|---|
| MCC |
0.854 |
>
|
0.779 |
| Average MCC ± 95% Confidence Intervals |
0.858
±
0.048
|
>
|
0.784
±
0.139
|
| Sensitivity |
0.759 |
>
|
0.617 |
| Positive Predictive Value |
0.962 |
<
|
0.988 |
| Total TP |
101 |
>
|
82 |
| Total TN |
14628 |
<
|
14650 |
| Total FP |
12 |
>
|
2 |
| Total FP CONTRA |
3 |
>
|
0 |
| Total FP INCONS |
1 |
=
|
1 |
| Total FP COMP |
8 |
>
|
1 |
| Total FN |
32 |
<
|
51 |
| P-value |
0.0 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(20) and CMfinder(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(20)
and CMfinder(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(20)
and CMfinder(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and CMfinder(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(20)
and CMfinder(20)).
Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
1. Total counts & total scores for PETfold_pre2.0(20)
| Total Base Pair Counts |
|---|
| Total TP |
101 |
| Total TN |
14628 |
| Total FP |
12 |
| Total FP CONTRA |
3 |
| Total FP INCONS |
1 |
| Total FP COMP |
8 |
| Total FN |
32 |
| Total Scores |
|---|
| MCC |
0.854 |
| Average MCC ± 95% Confidence Intervals |
0.858
±
0.048
|
| Sensitivity |
0.759 |
| Positive Predictive Value |
0.962 |
| Nr of predictions |
5 |
Performance of CMfinder(20)
- scored lower in this pairwise comparison
1. Total counts & total scores for CMfinder(20)
| Total Base Pair Counts |
|---|
| Total TP |
82 |
| Total TN |
14650 |
| Total FP |
2 |
| Total FP CONTRA |
0 |
| Total FP INCONS |
1 |
| Total FP COMP |
1 |
| Total FN |
51 |
| Total Scores |
|---|
| MCC |
0.779 |
| Average MCC ± 95% Confidence Intervals |
0.784
±
0.139
|
| Sensitivity |
0.617 |
| Positive Predictive Value |
0.988 |
| Nr of predictions |
5 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
