Standalone Blast tool and command

Question

[ravichandiranbt]

how to use standalone blast with assembled RNA data and sequenced peptide.

I have the assembled RNA data and i also have the protein peptides which is sequenced. Can i do standalone blast with the assembled to peptides.

[gb]

Yes, you can do a blastx

[gb]

I see now you are also asking for the command. It looks like something like this:

makeblastdb -in yourprotein.fa -dbtype prot
blastx -query yournucseqs.fa -db yourprotein.fa -out output

With the command blastx -help and blastx --help you can see all the options

[ravichandiranbt]

thank u. I ll try it