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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of PETfold_2.0(seed) - scored higher in this pairwise comparison

  4. Performance of CentroidHomfold‑LAST - scored lower in this pairwise comparison

  5. Compile and download dataset for PETfold_2.0(seed) & CentroidHomfold‑LAST [.zip] - may take several seconds...


Overview

Metric PETfold_2.0(seed) CentroidHomfold‑LAST
MCC 0.761 > 0.514
Average MCC ± 95% Confidence Intervals 0.761 ± > 0.514 ±
Sensitivity 0.614 > 0.368
Positive Predictive Value 0.946 > 0.724
Total TP 35 > 21
Total TN 6984 < 6992
Total FP 3 < 8
Total FP CONTRA 0 < 1
Total FP INCONS 2 < 7
Total FP COMP 1 > 0
Total FN 22 < 36
P-value 0.0

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Performance plots


  1. Comparison of performance of PETfold_2.0(seed) and CentroidHomfold-LAST. 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_2.0(seed) and CentroidHomfold‑LAST).

  2. Comparison of performance of PETfold_2.0(seed) and CentroidHomfold-LAST. 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_2.0(seed) and CentroidHomfold‑LAST).

  3. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(seed) and CentroidHomfold-LAST. 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_2.0(seed) and CentroidHomfold‑LAST).

  4. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_2.0(seed) and CentroidHomfold-LAST. 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_2.0(seed) and CentroidHomfold‑LAST).

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Performance of PETfold_2.0(seed) - scored higher in this pairwise comparison

1. Total counts & total scores for PETfold_2.0(seed)

Total Base Pair Counts
Total TP 35
Total TN 6984
Total FP 3
Total FP CONTRA 0
Total FP INCONS 2
Total FP COMP 1
Total FN 22
Total Scores
MCC 0.761
Average MCC ± 95% Confidence Intervals 0.761 ±
Sensitivity 0.614
Positive Predictive Value 0.946
Nr of predictions 1

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2. Individual counts for PETfold_2.0(seed) [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.76 0.61 0.95 35 6984 3 0 2 1 22

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Performance of CentroidHomfold‑LAST - scored lower in this pairwise comparison

1. Total counts & total scores for CentroidHomfold‑LAST

Total Base Pair Counts
Total TP 21
Total TN 6992
Total FP 8
Total FP CONTRA 1
Total FP INCONS 7
Total FP COMP 0
Total FN 36
Total Scores
MCC 0.514
Average MCC ± 95% Confidence Intervals 0.514 ±
Sensitivity 0.368
Positive Predictive Value 0.724
Nr of predictions 1

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2. Individual counts for CentroidHomfold‑LAST [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.51 0.37 0.72 21 6992 8 1 7 0 36

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Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

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