Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(20)
- scored higher in this pairwise comparison
- Performance of MXScarna(seed)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(20) & MXScarna(seed) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(20) |
|
MXScarna(seed) |
|---|
| MCC |
0.642 |
>
|
0.595 |
| Average MCC ± 95% Confidence Intervals |
0.620
±
0.120
|
>
|
0.562
±
0.107
|
| Sensitivity |
0.524 |
>
|
0.476 |
| Positive Predictive Value |
0.791 |
>
|
0.748 |
| Total TP |
345 |
>
|
314 |
| Total TN |
107984 |
<
|
108000 |
| Total FP |
119 |
<
|
151 |
| Total FP CONTRA |
4 |
<
|
16 |
| Total FP INCONS |
87 |
<
|
90 |
| Total FP COMP |
28 |
<
|
45 |
| Total FN |
314 |
<
|
345 |
| P-value |
2.7402423548e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(20) and MXScarna(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 MXScarna(seed)).
-
Comparison of performance of PETfold_pre2.0(20) and MXScarna(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 MXScarna(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 MXScarna(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 MXScarna(seed)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and MXScarna(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 MXScarna(seed)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and MXScarna(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 MXScarna(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 |
345 |
| Total TN |
107984 |
| Total FP |
119 |
| Total FP CONTRA |
4 |
| Total FP INCONS |
87 |
| Total FP COMP |
28 |
| Total FN |
314 |
| Total Scores |
|---|
| MCC |
0.642 |
| Average MCC ± 95% Confidence Intervals |
0.620
±
0.120
|
| Sensitivity |
0.524 |
| Positive Predictive Value |
0.791 |
| Nr of predictions |
17 |
Performance of MXScarna(seed)
- scored lower in this pairwise comparison
1. Total counts & total scores for MXScarna(seed)
| Total Base Pair Counts |
|---|
| Total TP |
314 |
| Total TN |
108000 |
| Total FP |
151 |
| Total FP CONTRA |
16 |
| Total FP INCONS |
90 |
| Total FP COMP |
45 |
| Total FN |
345 |
| Total Scores |
|---|
| MCC |
0.595 |
| Average MCC ± 95% Confidence Intervals |
0.562
±
0.107
|
| Sensitivity |
0.476 |
| Positive Predictive Value |
0.748 |
| Nr of predictions |
17 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
