Run a BLAST search

Note: we suppose that NCBI BLAST+ software is installed on you computer.

BeeDeeM creates a BLAST databank for every sequence databank installed.

So, you can easily run BLAST jobs, as illustrated by this command-line snippet:

# We get a query sequence from BeeDeeM repository
$ bdm query -d protein -i 1433S_HUMAN -f fas > 1433S_HUMAN.fas

# We "BLASTp" that query against the installed Human sub-division of Uniprot_Swissprot
$ blastp -db /biobase/p/SwissProt_human/current/SwissProt_human/SwissProt_humanM \
         -query 1433S_HUMAN.fas -outfmt 5 -out 1433S_HUMAN.blastp

In turn, the BLAST result file (1433S_HUMAN.blastp) can be viewed using the BLAST Viewer software.

Read more about using BLAST with BeeDeeM-managed banks.