I have fasta file and I want to run the file in Blast2Go through galaxy for functional characterization. Plz guide me about the steps required for this purpose.
firstly you should run the NCBI BLAST+ blastx tool in order to map your FASTA sequences against a protein database (ideally SWISSPROT, but you can select more than one database in the Protein BLAST database option). In addition, you should select BLAST XML as the output format for this tool. Then you can use the Blast2GO on the results generated in the previous step.