Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of NanoFolder
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & NanoFolder [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
NanoFolder |
|---|
| MCC |
0.883 |
>
|
0.340 |
| Average MCC ± 95% Confidence Intervals |
0.847
±
0.076
|
>
|
0.356
±
0.101
|
| Sensitivity |
0.848 |
>
|
0.430 |
| Positive Predictive Value |
0.922 |
>
|
0.283 |
| Total TP |
390 |
>
|
198 |
| Total TN |
39761 |
>
|
39484 |
| Total FP |
122 |
<
|
582 |
| Total FP CONTRA |
10 |
<
|
174 |
| Total FP INCONS |
23 |
<
|
328 |
| Total FP COMP |
89 |
>
|
80 |
| Total FN |
70 |
<
|
262 |
| P-value |
3.18846395401e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and NanoFolder. 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 NanoFolder).
-
Comparison of performance of PETfold_pre2.0(seed) and NanoFolder. 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 NanoFolder).
-
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 NanoFolder).
-
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 NanoFolder).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and NanoFolder. 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 NanoFolder).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and NanoFolder. 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 NanoFolder).
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 |
390 |
| Total TN |
39761 |
| Total FP |
122 |
| Total FP CONTRA |
10 |
| Total FP INCONS |
23 |
| Total FP COMP |
89 |
| Total FN |
70 |
| Total Scores |
|---|
| MCC |
0.883 |
| Average MCC ± 95% Confidence Intervals |
0.847
±
0.076
|
| Sensitivity |
0.848 |
| Positive Predictive Value |
0.922 |
| Nr of predictions |
19 |
Performance of NanoFolder
- scored lower in this pairwise comparison
1. Total counts & total scores for NanoFolder
| Total Base Pair Counts |
|---|
| Total TP |
198 |
| Total TN |
39484 |
| Total FP |
582 |
| Total FP CONTRA |
174 |
| Total FP INCONS |
328 |
| Total FP COMP |
80 |
| Total FN |
262 |
| Total Scores |
|---|
| MCC |
0.340 |
| Average MCC ± 95% Confidence Intervals |
0.356
±
0.101
|
| Sensitivity |
0.430 |
| Positive Predictive Value |
0.283 |
| Nr of predictions |
19 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
