PriDe: Primer Design tool
conda create -n pride --file packages.txt
conda activate pride- Print usage and help
python PriDe.py {design, test} -h
- Design primers with primer3:
python PriDe.py design reference.fa regions.bed output_directory --offset 50 --processes 10
- Blast primers on the reference:
python PriDe.py test output_directory/primers.fasta reference.fa output_directory --processes 10
- Grep perfect matches only
cat design_out/primers.fasta.blast.tsv | awk '{if($6 == $7) print}'