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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of PETfold_pre2.0(20) - scored higher in this pairwise comparison

  4. Performance of Afold - scored lower in this pairwise comparison

  5. Compile and download dataset for PETfold_pre2.0(20) & Afold [.zip] - may take several seconds...


Overview

Metric PETfold_pre2.0(20) Afold
MCC 0.640 > 0.516
Average MCC ± 95% Confidence Intervals 0.584 ± 0.461 > 0.520 ± 0.546
Sensitivity 0.612 > 0.565
Positive Predictive Value 0.675 > 0.480
Total TP 52 > 48
Total TN 10449 > 10426
Total FP 43 < 85
Total FP CONTRA 4 < 17
Total FP INCONS 21 < 35
Total FP COMP 18 < 33
Total FN 33 < 37
P-value 0.0

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Performance plots


  1. Comparison of performance of PETfold_pre2.0(20) and Afold. 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 Afold).

  2. Comparison of performance of PETfold_pre2.0(20) and Afold. 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 Afold).

  3. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and Afold. 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 Afold).

  4. Comparison of average Matthews Correlation Coefficients (MCCs) for PETfold_pre2.0(20) and Afold. 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 Afold).

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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 52
Total TN 10449
Total FP 43
Total FP CONTRA 4
Total FP INCONS 21
Total FP COMP 18
Total FN 33
Total Scores
MCC 0.640
Average MCC ± 95% Confidence Intervals 0.584 ± 0.461
Sensitivity 0.612
Positive Predictive Value 0.675
Nr of predictions 4

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2. Individual counts for PETfold_pre2.0(20) [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3E_8

5_8S_rRNA links to Rfam database...

0.48 0.47 0.50 7 2728 11 2 5 4 8
3ZEX_D

5S_rRNA links to Rfam database...

0.93 0.91 0.94 32 2762 6 0 2 4 3
4A1C_2

5_8S_rRNA links to Rfam database...

0.25 0.25 0.25 5 4496 25 2 13 10 15
4ENB_A

crcB links to Rfam database...

0.68 0.53 0.89 8 463 1 0 1 0 7

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Performance of Afold - scored lower in this pairwise comparison

1. Total counts & total scores for Afold

Total Base Pair Counts
Total TP 48
Total TN 10426
Total FP 85
Total FP CONTRA 17
Total FP INCONS 35
Total FP COMP 33
Total FN 37
Total Scores
MCC 0.516
Average MCC ± 95% Confidence Intervals 0.520 ± 0.546
Sensitivity 0.565
Positive Predictive Value 0.480
Nr of predictions 4

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2. Individual counts for Afold [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3E_8

5_8S_rRNA links to Rfam database...

0.26 0.33 0.21 5 2718 31 6 13 12 10
3ZEX_D

5S_rRNA links to Rfam database...

0.82 0.77 0.87 27 2765 8 0 4 4 8
4A1C_2

5_8S_rRNA links to Rfam database...

0.19 0.25 0.15 5 4483 43 11 17 15 15
4ENB_A

crcB links to Rfam database...

0.81 0.73 0.92 11 460 3 0 1 2 4

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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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