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fastacmd

By Altschul S., Lipman D., Last update 1494698998
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fastacmd description

Fastacmd retrieves FASTA formatted sequences from a blast database that was indexed using formatdb and formatted using the *-o* option. An example fastacmd call would be: fastacmd -d nr -s p38398 fastacmd is one of the programs distributed along with the old blastall program by the NCBI.


Parent program: blast

BLAST is a software for comparing a query sequence with a library or database of sequences. BLAST identifies library hits that resemble the query above a certain threshold. Different types of BLASTs are designed according to the query and database types and search specificity (nucleotide blast implemented by blastn, megablast anddiscontiguousmegablast algorithms, protein blast by algorithms blastp, psi-blast, phi-blast, delta-blast, and three mixed types – blastx, tblastn, tblastx). Some specialized BLAST search types are also provided.