Thank you for the useful tool. I've used it for many projects already.
I'm assembling a genome that may be prone to overpurging OR collapsing tetrasomic regions. I have some datasets with and without Hi-C reads. For the ones without Hi-C reads, when I use the -l 0 option, it does not produce either of the partially phased assemblies. I didn't expect this to happen, but I'm starting to think it's a feature and not a bug. I've looked through the tutorials but haven't seen this mentioned. Any info would be greatly appreciated.
My command:
hifiasm -o ./${PREFIX} -t ${THREADS} -l 0 --hom-cov 66 ${PREFIX}.HERRO.chunked.fasta
Thank you
-Steve
Thank you for the useful tool. I've used it for many projects already.
I'm assembling a genome that may be prone to overpurging OR collapsing tetrasomic regions. I have some datasets with and without Hi-C reads. For the ones without Hi-C reads, when I use the -l 0 option, it does not produce either of the partially phased assemblies. I didn't expect this to happen, but I'm starting to think it's a feature and not a bug. I've looked through the tutorials but haven't seen this mentioned. Any info would be greatly appreciated.
My command:
hifiasm -o ./${PREFIX} -t ${THREADS} -l 0 --hom-cov 66 ${PREFIX}.HERRO.chunked.fasta
Thank you
-Steve