I am fairly new to using blast, especially at the command line. In the nex paragraph, I will sketch my problem.
I have two files with sequences (formated as a fasta-file: >header \n sequence ...). I already translated them into proteins. I already made a local database of one of the files with the "makeblastdb" command. Now I would like to blast (blastp) every sequence from the other file to that database, but I have no idea how to do this. In the manual (Blast+) I could not find an answer.
Thanks in advance.