How to interpret the 'NNNNN' in the 'model_kmer' column of eventalign?

hasindu2008 / f5c

Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)

https://hasindu2008.github.io/f5c/docs/overview

MIT License

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How to interpret the 'NNNNN' in the 'model_kmer' column of eventalign? #149

Closed zhongzhd closed 8 months ago

zhongzhd commented 11 months ago

hello, I would like to understand how to interpret the presence of 'NNNNN' in the 'model_kmer' column in eventalign, why this situation occurs, and how we should handle it. Thanks.

hasindu2008 commented 11 months ago

Hello @zhongzhd

The NNNNN in f5c has the same meaning as that in nanopolish. See if https://github.com/jts/nanopolish/issues/438 and https://github.com/jts/nanopolish/issues/264 answer your question?