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How to specify organism taxa in biopythons remote blast cmd?

I' doing tblastn with biopython via

from Bio.Blast import NCBIWWW
fasta_string = open("my_query.faa").read()
result_handle = NCBIWWW.qblast("tblastn", "refseq_genomes", fasta_string )

and i want to limit my search only to one taxa - arthropods (taxid:6656)

In web blast it is easily done, but i can't seem to find the right option here.

biopyhon blastx
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written by tim.ivanov.92 • tim.ivanov.92

1 answer

Hi there,

I think entrez_query option should do the job e.g. entrez_query='txid6656[ORGN]' http://biopython.org/DIST/docs/api/Bio.Blast.NCBIWWW-module.html

entrez_query Entrez query to limit Blast search
• 1 views • link
written by Sej Modha Sej Modha

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