How to identify unknow bacterium species from whole genome genetic sequence I am a Biochemist that is unfamiliar with bioinformatic tools and new to academia as a whole.
I am currently using ILLUMINA PE data, which I trimmed (Trimmomatic), corrected (Rcorrector) and assembled (SPAdes). I am now interested in using the genetic sequences from my contigs to identify the original organism (I know it is a bacterium).
I have tried using BLASTn (with default parameters) on one of my contigs. I let the query run for 30 minutes before stopping, nothing came of it.
What would be the best way to go about doing this?
You can use KmerFinder and Kraken2 for taxonomy assignment