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rvaser / spoa

SIMD partial order alignment tool/library
MIT License
158 stars 32 forks source link

Minimum coverage #10

Closed armintoepfer closed 6 years ago

armintoepfer commented 6 years ago

First up, great work!

Is there any chance you can add a minimum coverage requirement before calling a base? The idea behind that, if I have 10 reads with a large deletion and 2 with a partial deletion, I only want to call bases in the consensus with at least coverage of, e.g., 5.

Thank you!

rvaser commented 6 years ago

Hello @armintoepfer, I am not sure if I understand your request. You want to call consensus if each base has at least 5 coverage? Or you want only those bases that have at least 5 coverage?

Thanks for kind words!

rvaser commented 6 years ago

@armintoepfer, I am pinging you if you by any chance have not seen my reply.

armintoepfer commented 6 years ago

Oh sorry. I figured it out on my own.