Table 3 Summary of training classes used for PACIFIC.
From: PACIFIC: a lightweight deep-learning classifier of SARS-CoV-2 and co-infecting RNA viruses
Class | Total reads | Number of genome assemblies | Number of taxonomic units | Included species/genus groups |
|---|---|---|---|---|
Coronaviridae [ssRNA( +)] | 644,483 | 12 | 12 | Alpha, beta, gamma and unclassified coronaviruses |
Influenza [ssRNA(−)] | 1,073,237 | 128 | 125 | Influenza A (H1N1, H2N2, H3N2, H5N1, H7N9, H9N2), Influenza B |
Metapneumovirus [ssRNA(−)] | 443,974 | 5 | 1 | Metapneumovirus |
Rhinovirus [ssRNA(+)] | 1,339,435 | 130 | 107 | Rhinovirus A and A1, B, C (C1, C2, C10), other enterovirus |
SARS-CoV-2 [ssRNA(+)] | 865,303 | 87 | 1 | SARS-CoV-2 |
Human | 3,531,425 | 1a | 1 | Human transcriptome |
Total | 7,897,857 | 363 | 247 |
