I have a situation where a couple of unitigs which are disconnected (i.e. have no edges in the p_utg.gfa) suddenly turn into a contiguous contig in the following step (using hifiasm with UL reads). I was wondering if you could explain why does this happen?
I assume this question might be related the functioning of the --max-kocc and -u options but I could not find any info on how these two steps work. I'm trying to assemble a satellite region so my concern is that the regions is getting collapsed.
Hello again,
I have a situation where a couple of unitigs which are disconnected (i.e. have no edges in the p_utg.gfa) suddenly turn into a contiguous contig in the following step (using hifiasm with UL reads). I was wondering if you could explain why does this happen?
I assume this question might be related the functioning of the
--max-koccand-uoptions but I could not find any info on how these two steps work. I'm trying to assemble a satellite region so my concern is that the regions is getting collapsed.Many thanks for your help as always!