search

aakechin / NGS-PrimerPlex

NGS-PrimerPlex is a high-throughput tool for mupltiplex primer design
GNU General Public License v3.0
52 stars 22 forks source link

Ideas on how to target primer design so one primer lands on a SNP? #45

Open ColetteONeill opened 1 year ago

ColetteONeill commented 1 year ago

Hello @aakechin , this may seem like an odd question - but is it possible to target specific SNPs in the reference genome, rather than try to avoid them? The hope is to get one primer (it doesn't matter which) to land on a specific SNP for each primer pair, and the other would land elsewhere (not on a SNP). I don't think there is an existing parameter for this and I've had a look at your code and as basic user of Python it seems a bit beyond me to make the necessary changes without advice! Many thanks in advance, Colette.

aakechin commented 1 year ago

@ColetteONeill Unfortunately, there is no such feature in the NGS-PrimerPlex to do this analysis. Possibly, we will consider this new feature in the next versions. Now we're working on many large changes in the program to make it more useful and user-friendly.

ColetteONeill commented 1 year ago

@aakechin thank you for getting back to me! I will keep an eye on NGS-PrimerPlex for the future.