What do you do when you do virus identification/discovery using metagenomic NGS?
1. remove host reads and then use the rest reads, or directly use the all reads?
2. compare reads with viral databases, or do de novo assemble first and then compare contigs with viral databases?
1. remove host reads and then use the rest reads, or directly use the all reads?
2. compare reads with viral databases, or do de novo assemble first and then compare contigs with viral databases?