PCR assays were conducted to confirm mNGS hits for each specific virus identified from the viral metagenomic pipeline. Depending on availability of CSF, the PCR confirmations were performed either on leftover NA or newly extracted NA. A viral mNGS result was considered positive only if it was subsequently confirmed by PCR analysis of the original NA samples. The nucleotide sequences of primers and probes used for PCR confirmatory testing are shown in Appendix Table 2 (8).

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