Open leoisl opened 1 year ago
Done in https://github.com/iqbal-lab-org/make_prg/commit/46534bccf4c6a347ef17707747da3e6021134686, testing in 4way
How do we get an N in a novel variant?
For some reason racon
output a N
in a consensus sequence...
Weird...
When running the 4-way pipeline, updating the E coli PRG with illumina data, I got this error:
There are 36416 new variants found, and only a single one has
N
in it. I'd very much prefer to simply issue a warning here: https://github.com/iqbal-lab-org/make_prg/blob/c2c7ff0f40dabc5034e2bfad7d6c2229e5649b09/make_prg/update/denovo_variants.py#L85 than erroring out and not being able to update