chhylp123
chhylp123
Yes, let me make a release for this function. I will let you know once it works.
Everything looks fine from the log file. For cancer, it would be always better to manually curate the final contigs.
It is fine in most cases. The log file has already shown hifiasm produced `ls.asm.hic.hap1.p_ctg.gfa` and `ls.asm.hic.hap2.p_ctg.gfa`. Could you please double check these files?
Which types of overlap do you need?
In GFA files, hifiasm outputs the read IDs and their coordinates if they are used in building assemblies (see A-lines at: https://hifiasm.readthedocs.io/en/latest/interpreting-output.html#interpreting-output).
It looks like a bug. Is it possible that you can share the bin files with us? Otherwise I could just make hifiasm skip this issue to finish the assembly.
@nickgladman Which version are you using? It seems the latest version may work for your issue.
Got it. Will let you know as soon as possible.
In both cases, the two haplotypes will be outputted to `*hap*.p_ctg.gfa`.