I would like to get the scientific names of each of my blast hits from blastn run locally. I have downloaded the taxdb.tar.gz taxonomy database from NCBI and have set the $BLASTDB variable to the directory with my blast database and query contigs. In my tabbed output, all I get is an 'N/A' in the spaces where the scientific names should be present. I was wondering if I am missing an important step in the taxonomy database installation?
$ export BLASTDB=$BLASTDB:/path/to/myblastdb $ blastn -db all_viruses.fasta -query my_contigs.fasta -max_target_seqs 200 -evalue 0.001 -outfmt "6 qseqid sseqid sscinames qcovs pident evalue bitscore length" -out my_blast_results
Thank you in advance, Brie