Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
- Performance of Carnac(seed)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(20) & Carnac(seed) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(20) |
|
Carnac(seed) |
|---|
| MCC |
0.860 |
>
|
0.552 |
| Average MCC ± 95% Confidence Intervals |
0.836
±
0.074
|
>
|
0.182
±
0.580
|
| Sensitivity |
0.830 |
>
|
0.327 |
| Positive Predictive Value |
0.891 |
<
|
0.932 |
| Total TP |
663 |
>
|
261 |
| Total TN |
1387042 |
<
|
1387506 |
| Total FP |
148 |
>
|
35 |
| Total FP CONTRA |
18 |
>
|
6 |
| Total FP INCONS |
63 |
>
|
13 |
| Total FP COMP |
67 |
>
|
16 |
| Total FN |
136 |
<
|
538 |
| P-value |
0.0 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(20) and Carnac(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 Carnac(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 Carnac(seed)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and Carnac(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 Carnac(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 |
663 |
| Total TN |
1387042 |
| Total FP |
148 |
| Total FP CONTRA |
18 |
| Total FP INCONS |
63 |
| Total FP COMP |
67 |
| Total FN |
136 |
| Total Scores |
|---|
| MCC |
0.860 |
| Average MCC ± 95% Confidence Intervals |
0.836
±
0.074
|
| Sensitivity |
0.830 |
| Positive Predictive Value |
0.891 |
| Nr of predictions |
4 |
Performance of Carnac(seed)
- scored lower in this pairwise comparison
1. Total counts & total scores for Carnac(seed)
| Total Base Pair Counts |
|---|
| Total TP |
261 |
| Total TN |
1387506 |
| Total FP |
35 |
| Total FP CONTRA |
6 |
| Total FP INCONS |
13 |
| Total FP COMP |
16 |
| Total FN |
538 |
| Total Scores |
|---|
| MCC |
0.552 |
| Average MCC ± 95% Confidence Intervals |
0.182
±
0.580
|
| Sensitivity |
0.327 |
| Positive Predictive Value |
0.932 |
| Nr of predictions |
4 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
