Do a blast in MacOS terminal
Here I am doing a Blast in MacOs terminal.
Blasting in terminal is way faster than online or using a third party application.
In this video I have downloaded 8000 viral genomes to see if my sequence( the one with the viral epitopes) is still the same in all viral sequences submitted in the last month.
- Download viral genomes from GISAID :
https://www.gisaid.org
- Install BLAST command line for MacOS terminal :
https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/
- Make a database of nucleotides in MacOS terminal :
makeblastdb -in [file] -dbtype nucl/prot/string -out path/to/db
- Blast a particular sequence to a nucleotide database
Blast a sequence : blastn -query [file.fa] -db [path/to/database] "here you will insert a more than sign"[file.txt]
