I have a contigs' fasta file (2.5Gb) and I want to remove some contigs which can blast to mouse genome database from it. That means I need to input my fasta file, database and get the output screened fasta file without the mouse related contigs.
Can I use the blat or the vsearch to finish this work? How to set the parameters? I read some help files but can't find this screen function.
Thanks very much if you could give me some advice