Table of contents:
- Overview
- Performance Plots
- Performance of PETfold_pre2.0(seed)
- scored higher in this pairwise comparison
- Performance of Contrafold
- scored lower in this pairwise comparison
- Compile and download dataset for PETfold_pre2.0(seed) & Contrafold [.zip] - may take several seconds...
Overview
Metric |
PETfold_pre2.0(seed) |
|
Contrafold |
MCC |
0.831 |
>
|
0.669 |
Average MCC ± 95% Confidence Intervals |
0.774
±
0.073
|
>
|
0.623
±
0.143
|
Sensitivity |
0.802 |
>
|
0.680 |
Positive Predictive Value |
0.863 |
>
|
0.660 |
Total TP |
603 |
>
|
511 |
Total TN |
451981 |
>
|
451906 |
Total FP |
216 |
<
|
383 |
Total FP CONTRA |
35 |
<
|
75 |
Total FP INCONS |
61 |
<
|
188 |
Total FP COMP |
120 |
=
|
120 |
Total FN |
149 |
<
|
241 |
P-value |
1.66062906821e-08 |
Performance plots
-
Comparison of performance of PETfold_pre2.0(seed) and Contrafold. 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 Contrafold).
-
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 Contrafold).
-
Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(seed) and Contrafold. 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 Contrafold).
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 |
603 |
Total TN |
451981 |
Total FP |
216 |
Total FP CONTRA |
35 |
Total FP INCONS |
61 |
Total FP COMP |
120 |
Total FN |
149 |
Total Scores |
MCC |
0.831 |
Average MCC ± 95% Confidence Intervals |
0.774
±
0.073
|
Sensitivity |
0.802 |
Positive Predictive Value |
0.863 |
Nr of predictions |
16 |
Performance of Contrafold
- scored lower in this pairwise comparison
1. Total counts & total scores for Contrafold
Total Base Pair Counts |
Total TP |
511 |
Total TN |
451906 |
Total FP |
383 |
Total FP CONTRA |
75 |
Total FP INCONS |
188 |
Total FP COMP |
120 |
Total FN |
241 |
Total Scores |
MCC |
0.669 |
Average MCC ± 95% Confidence Intervals |
0.623
±
0.143
|
Sensitivity |
0.680 |
Positive Predictive Value |
0.660 |
Nr of predictions |
16 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based
on the paper by Gardener & Giegerich, 2004.
|