raw illumina reads or assembled contigs for Taxonomy
 

Hello!

I am having whole genome sequenced metagenomic data that is assembled using meta-velevt. I want to check taxonomic classification using MgRAST. I need to know that whether I should use raw reads or assembled contigs for taxonomy classification as I am interested in showing functional annotation using assembled contigs.

Please help me in clearing this confusion that which is better way for taxonomy classification; raw reads or assembled contigs?

Best regards

Assembled contigs data should be much better than raw reads, if available.