Hi there,
I am using blastn in command line. I have a genome and created a blast database out of it with makeblastdb
During the pipeline I am developing I need to blast some sequence versus specific chromosomes of the genome and not the entire genome. At the moment I use the command
blastn -query queryFile -db genomeDatabase -outfmt 6
Let's say that in the genomeDatabase file I have chr1, chr2, chr3 and so on. What can I add to my command to search my sequence versus just chr1 or chr2 and so on?
thanks for your help!
I am using blastn in command line. I have a genome and created a blast database out of it with makeblastdb
During the pipeline I am developing I need to blast some sequence versus specific chromosomes of the genome and not the entire genome. At the moment I use the command
blastn -query queryFile -db genomeDatabase -outfmt 6
Let's say that in the genomeDatabase file I have chr1, chr2, chr3 and so on. What can I add to my command to search my sequence versus just chr1 or chr2 and so on?
thanks for your help!