Is there a way to mimic the "edge_filter" behavior of megalodon in modbam2bed?

[billytcl]

Megalodon has a feature called "edge_filter" (https://nanoporetech.github.io/megalodon/advanced_arguments.html?highlight=edge):

--edge-buffer

Do not process sequence variant or modified base calls near edge of read mapping.

Default: 30

This is useful in some niche applications for us. Is there a way that modbam2bed can do this, or would I have to manually cobble something together using modbampy?

[cjw85]

You would have to pre-trim the alignments, or use the Python interface.

[billytcl]

Rats! I was hoping there would be an easier way. Thanks for the quick reply!