can nanopolish work without a genome alignment?

[haannguyen]

Hello,

I am working with a short synthetic RNA and looking at the polyA tail by Nanopore sequencing. Is there a way to run nanopolish on a sequence that does not align to a reference genome?

Thank you!

Yours, Ha An

[jts]

The bam file is required. You can try to align the reads to the synthetic genome to generate one.

[haannguyen]

Thank you!