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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of Afold - scored higher in this pairwise comparison

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

  5. Compile and download dataset for Afold & NanoFolder [.zip] - may take several seconds...


Overview

Metric Afold NanoFolder
MCC 0.513 > 0.311
Average MCC ± 95% Confidence Intervals 0.517 ± 0.536 > 0.352 ± 0.434
Sensitivity 0.481 > 0.349
Positive Predictive Value 0.554 > 0.285
Total TP 62 > 45
Total TN 22474 > 22428
Total FP 66 < 121
Total FP CONTRA 5 < 21
Total FP INCONS 45 < 92
Total FP COMP 16 > 8
Total FN 67 < 84
P-value 0.0

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Performance plots


  1. Comparison of performance of Afold and NanoFolder. 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 Afold and NanoFolder).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for Afold and NanoFolder. 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 Afold and NanoFolder).

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Performance of Afold - scored higher in this pairwise comparison

1. Total counts & total scores for Afold

Total Base Pair Counts
Total TP 62
Total TN 22474
Total FP 66
Total FP CONTRA 5
Total FP INCONS 45
Total FP COMP 16
Total FN 67
Total Scores
MCC 0.513
Average MCC ± 95% Confidence Intervals 0.517 ± 0.536
Sensitivity 0.481
Positive Predictive Value 0.554
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
2LC8_A

GP_knot1 links to Rfam database...

0.61 0.55 0.69 11 1524 6 0 5 1 9
2LKR_A - 0.93 0.87 1.00 34 6071 3 0 0 3 5
3U4M_B - 0.38 0.32 0.46 12 3134 14 0 14 0 25
4A1C_2

5_8S_rRNA links to Rfam database...

0.14 0.15 0.14 5 11745 43 5 26 12 28

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Performance of NanoFolder - scored lower in this pairwise comparison

1. Total counts & total scores for NanoFolder

Total Base Pair Counts
Total TP 45
Total TN 22428
Total FP 121
Total FP CONTRA 21
Total FP INCONS 92
Total FP COMP 8
Total FN 84
Total Scores
MCC 0.311
Average MCC ± 95% Confidence Intervals 0.352 ± 0.434
Sensitivity 0.349
Positive Predictive Value 0.285
Nr of predictions 4

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

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
2LC8_A

GP_knot1 links to Rfam database...

0.52 0.55 0.50 11 1518 11 0 11 0 9
2LKR_A - 0.29 0.33 0.25 13 6054 38 8 30 0 26
3U4M_B - 0.61 0.57 0.66 21 3128 11 1 10 0 16
4A1C_2

5_8S_rRNA links to Rfam database...

0.00 0.00 0.00 0 11728 61 12 41 8 33

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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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