Table 3 Validation/testing of the RVFV Typing tool to classify whole genome sequences (n = 234) using complete L-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 | 93.0 | 141.0 | 5.0 | 0.0 | 100.0 | 3.42 | 97.91 |
D | 1 | 0.0 | 234.0 | 0.0 | 1.0 | 0.0 | 0.0 | 99.57 |
E | 3 | 3.0 | 231.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
F | 2 | 1.0 | 233.0 | 0.0 | 1.0 | 50.0 | 0.0 | 99.57 |
G | 2 | 2.0 | 232.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
H | 105 | 99.0 | 135.0 | 0.0 | 6.0 | 94.29 | 0.0 | 97.5 |
I | 2 | 3.0 | 231.0 | 1.0 | 0.0 | 100.0 | 0.43 | 99.57 |
J | 1 | 0.0 | 234.0 | 0.0 | 1.0 | 0.0 | 0.0 | 99.57 |
K | 4 | 6.0 | 228.0 | 2.0 | 0.0 | 100.0 | 0.87 | 99.15 |
L | 8 | 10.0 | 224.0 | 2.0 | 0.0 | 100.0 | 0.88 | 99.15 |
M | 1 | 0.0 | 234.0 | 0.0 | 1.0 | 0.0 | 0.0 | 99.57 |
N | 5 | 5.0 | 229.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 |
O | 1 | 0.0 | 234.0 | 0.0 | 1.0 | 0.0 | 0.0 | 99.57 |