Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
- Performance of PPfold(seed)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(20) & PPfold(seed) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(20) |
|
PPfold(seed) |
|---|
| MCC |
0.616 |
>
|
0.344 |
| Average MCC ± 95% Confidence Intervals |
0.629
±
0.142
|
>
|
0.265
±
0.172
|
| Sensitivity |
0.400 |
>
|
0.128 |
| Positive Predictive Value |
0.952 |
>
|
0.927 |
| Total TP |
237 |
>
|
76 |
| Total TN |
86961 |
<
|
87128 |
| Total FP |
24 |
>
|
12 |
| Total FP CONTRA |
0 |
=
|
0 |
| Total FP INCONS |
12 |
>
|
6 |
| Total FP COMP |
12 |
>
|
6 |
| Total FN |
355 |
<
|
516 |
| P-value |
5.19332990918e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(20) and PPfold(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(20)
and PPfold(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(20)
and PPfold(seed)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and PPfold(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(20)
and PPfold(seed)).
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 |
237 |
| Total TN |
86961 |
| Total FP |
24 |
| Total FP CONTRA |
0 |
| Total FP INCONS |
12 |
| Total FP COMP |
12 |
| Total FN |
355 |
| Total Scores |
|---|
| MCC |
0.616 |
| Average MCC ± 95% Confidence Intervals |
0.629
±
0.142
|
| Sensitivity |
0.400 |
| Positive Predictive Value |
0.952 |
| Nr of predictions |
23 |
Performance of PPfold(seed)
- scored lower in this pairwise comparison
1. Total counts & total scores for PPfold(seed)
| Total Base Pair Counts |
|---|
| Total TP |
76 |
| Total TN |
87128 |
| Total FP |
12 |
| Total FP CONTRA |
0 |
| Total FP INCONS |
6 |
| Total FP COMP |
6 |
| Total FN |
516 |
| Total Scores |
|---|
| MCC |
0.344 |
| Average MCC ± 95% Confidence Intervals |
0.265
±
0.172
|
| Sensitivity |
0.128 |
| Positive Predictive Value |
0.927 |
| Nr of predictions |
23 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
