Only mapping reads that match reference and are longer than a given length in Minimap2

Question

[zack.saud]

Hi all,

I would be most grateful if someone could tell me the flags to use in Minimap2 to align Nanopore reads to a small part of a genome. My attempts seem to have aligned other reads with small sections of homology, but I just want to map reads with >2000 bp of matching homology.

Could anyone help tell me which flags to use in Minimap2 to do this?

Many thanks in advance

Best