Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of MXScarna(20)
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & MXScarna(20) [.zip] - may take several seconds...
Overview
| Metric |
PETfold_pre2.0(seed) |
|
MXScarna(20) |
|---|
| MCC |
0.887 |
>
|
0.697 |
| Average MCC ± 95% Confidence Intervals |
0.851
±
0.067
|
>
|
0.661
±
0.127
|
| Sensitivity |
0.858 |
>
|
0.680 |
| Positive Predictive Value |
0.919 |
>
|
0.721 |
| Total TP |
375 |
>
|
297 |
| Total TN |
41992 |
>
|
41988 |
| Total FP |
123 |
<
|
211 |
| Total FP CONTRA |
11 |
<
|
39 |
| Total FP INCONS |
22 |
<
|
76 |
| Total FP COMP |
90 |
<
|
96 |
| Total FN |
62 |
<
|
140 |
| P-value |
2.78993384543e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and MXScarna(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(seed)
and MXScarna(20)).
-
Comparison of performance of PETfold_pre2.0(seed) and MXScarna(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(seed)
and MXScarna(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(seed)
and MXScarna(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(seed)
and MXScarna(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and MXScarna(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(seed)
and MXScarna(20)).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and MXScarna(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(seed)
and MXScarna(20)).
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 |
375 |
| Total TN |
41992 |
| Total FP |
123 |
| Total FP CONTRA |
11 |
| Total FP INCONS |
22 |
| Total FP COMP |
90 |
| Total FN |
62 |
| Total Scores |
|---|
| MCC |
0.887 |
| Average MCC ± 95% Confidence Intervals |
0.851
±
0.067
|
| Sensitivity |
0.858 |
| Positive Predictive Value |
0.919 |
| Nr of predictions |
18 |
Performance of MXScarna(20)
- scored lower in this pairwise comparison
1. Total counts & total scores for MXScarna(20)
| Total Base Pair Counts |
|---|
| Total TP |
297 |
| Total TN |
41988 |
| Total FP |
211 |
| Total FP CONTRA |
39 |
| Total FP INCONS |
76 |
| Total FP COMP |
96 |
| Total FN |
140 |
| Total Scores |
|---|
| MCC |
0.697 |
| Average MCC ± 95% Confidence Intervals |
0.661
±
0.127
|
| Sensitivity |
0.680 |
| Positive Predictive Value |
0.721 |
| Nr of predictions |
18 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
| 
