Table 6 Performance of machine learning models on E. coli sequencing dataset (threshold: total aligned bases = 80 bp)
From: MAC-ErrorReads: machine learning-assisted classifier for filtering erroneous NGS reads
Metrics | Accuracy | Precision | Recall | F1-score | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
k-mer size | 7 | 9 | 11 | 13 | 15 | 7 | 9 | 11 | 13 | 15 | 7 | 9 | 11 | 13 | 15 | 7 | 9 | 11 | 13 | 15 |
SVM | 0.81 | 0.67 | 0.88 | 0.99 | 0.99 | 0.81 | 0.67 | 0.89 | 1 | 1 | 0.99 | 0.99 | 0.99 | 0.99 | 0.99 | 0.89 | 0.80 | 0.93 | 0.99 | 0.99 |
RF | 0.88 | 0.83 | 0.49 | 0.26 | 0.18 | 0.9 | 0.84 | 0.48 | 0.25 | 0.17 | 0.99 | 0.99 | 0.99 | 0.99 | 0.99 | 0.94 | 0.91 | 0.65 | 0.4 | 0.29 |
LR | 0.74 | 0.66 | 0.77 |  ×  |  ×  | 0.75 | 0.66 | 0.78 |  ×  |  ×  | 0.99 | 0.99 | 0.99 |  ×  |  ×  | 0.85 | 0.79 | 0.87 |  ×  |  ×  |
NB | 0.88 | 0.9 | 0.98 | 0.99 | 0.99 | 0.89 | 0.91 | 1 | 1 | 1 | 0.99 | 0.99 | 0.99 | 0.99 | 0.99 | 0.93 | 0.94 | 0.99 | 0.99 | 0.99 |
XGBoost | 0.36 | 0.21 | 0.15 |  ×  |  ×  | 0.36 | 0.20 | 0.14 |  ×  |  ×  | 0.99 | 0.99 | 0.99 |  ×  |  ×  | 0.52 | 0.34 | 0.25 |  ×  |  ×  |