Table 5 Validation/testing of the RVFV Typing tool to classify whole genome sequences (n = 234) using complete S-segment sequences. The classification results were compared to manual phylogenetic analysis. Abbreviations as used in this table: TP True Positives, TN True Negatives, FP False Positives, FN False Negatives, TPR True Positive Rate, FPR False Positive Rate, ACC Accuracy
From: Genomic surveillance of Rift Valley fever virus: from sequencing to lineage assignment
Lineage | Known | TP | TN | FP | FN | TPR | FPR | ACC |
|---|---|---|---|---|---|---|---|---|
A | 10 | 11.0 | 223.0 | 1.0 | 0.0 | 100.0 | 0.45 | 99.57 |
B | 1 | 1.0 | 233.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
C | 88 | 88.0 | 146.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
D | 1 | 1.0 | 233.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
E | 3 | 5.0 | 229.0 | 2.0 | 0.0 | 100.0 | 0.87 | 99.15 |
F | 2 | 2.0 | 232.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
G | 2 | 0.0 | 234.0 | 0.0 | 2.0 | 0.0 | 0.0 | 99.15 |
H | 105 | 103.0 | 131.0 | 0.0 | 2.0 | 98.1 | 0.0 | 99.15 |
I | 2 | 2.0 | 232.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
J | 1 | 1.0 | 233.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
K | 4 | 5.0 | 229.0 | 1.0 | 0.0 | 100.0 | 0.43 | 99.57 |
L | 8 | 7.0 | 227.0 | 0.0 | 1.0 | 87.5 | 0.0 | 99.57 |
M | 1 | 1.0 | 233.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
N | 5 | 5.0 | 229.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
O | 1 | 2.0 | 232.0 | 1.0 | 0.0 | 100.0 | 0.43 | 99.57 |