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sanjaynagi / AnoPrimer

Primer Design in Anopheles gambiae and funestus considering genetic variation
https://sanjaynagi.github.io/AnoPrimer/
MIT License
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add support for CNVs #3

Closed sanjaynagi closed 1 year ago

sanjaynagi commented 2 years ago

Need to figure out the possible CNV orientations. this would possibly require manually providing the cnv sequence and breakpoints

sanjaynagi commented 1 year ago

CNV support would be a bit hacky, as there are a few different ways CNVs can appear - different orientations, sometimes other bits of DNA are amplified too, etc.

We should perhaps allow users to provide their own DNA sequence to target (which could contain a CNV), and then use the gget BLAT alignment to find where the primers are on AgamP3.

sanjaynagi commented 1 year ago

Far too involved, closing.