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Table of contents:

  1. Overview

  2. Performance Plots

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

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

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


Overview

Metric NanoFolder MCFold
MCC 0.441 > 0.419
Average MCC ± 95% Confidence Intervals 0.490 ± 0.550 > 0.424 ± 0.371
Sensitivity 0.560 > 0.467
Positive Predictive Value 0.359 < 0.389
Total TP 42 > 35
Total TN 6699 < 6726
Total FP 93 > 76
Total FP CONTRA 27 > 13
Total FP INCONS 48 > 42
Total FP COMP 18 < 21
Total FN 33 < 40
P-value 0.0

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Performance plots


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

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

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Performance of NanoFolder - scored higher in this pairwise comparison

1. Total counts & total scores for NanoFolder

Total Base Pair Counts
Total TP 42
Total TN 6699
Total FP 93
Total FP CONTRA 27
Total FP INCONS 48
Total FP COMP 18
Total FN 33
Total Scores
MCC 0.441
Average MCC ± 95% Confidence Intervals 0.490 ± 0.550
Sensitivity 0.560
Positive Predictive Value 0.359
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...

0.54 0.61 0.50 11 506 11 1 10 0 7
3U4M_B - 0.77 0.91 0.67 20 1246 12 6 4 2 2
4A1C_2

5_8S_rRNA links to Rfam database...

-0.01 0.00 0.00 0 4469 61 18 29 14 20
4ENC_A

crcB links to Rfam database...

0.66 0.73 0.61 11 478 9 2 5 2 4

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Performance of MCFold - scored lower in this pairwise comparison

1. Total counts & total scores for MCFold

Total Base Pair Counts
Total TP 35
Total TN 6726
Total FP 76
Total FP CONTRA 13
Total FP INCONS 42
Total FP COMP 21
Total FN 40
Total Scores
MCC 0.419
Average MCC ± 95% Confidence Intervals 0.424 ± 0.371
Sensitivity 0.467
Positive Predictive Value 0.389
Nr of predictions 4

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2. Individual counts for MCFold [ 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...

0.44 0.44 0.47 8 511 10 0 9 1 10
3U4M_B - 0.74 0.77 0.71 17 1252 10 1 6 3 5
4A1C_2

5_8S_rRNA links to Rfam database...

0.18 0.25 0.14 5 4480 45 12 19 14 15
4ENC_A

crcB links to Rfam database...

0.34 0.33 0.38 5 483 11 0 8 3 10

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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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