kraken2 icon indicating copy to clipboard operation
kraken2 copied to clipboard

Empirically good values for ONT data when generating custom database

Open ms-gx opened this issue 4 years ago • 9 comments

What are empirically good values for l and k when generating a custom database which is going to be used for Oxford Nanopore data?

Anyone some hints here? Would you stick to the default? I am asking since I get quite spurious kmer hits with default values and I am suspecting that part of the problem might be the ONT error rate...

ms-gx avatar Nov 01 '20 09:11 ms-gx