Can I see the contig information of hap1 and hap2 matched with each other in the hifiasm result?

[minjeongjj]

Thank you so much for making such a great tool.

It helped a lot with haplotype-resolving my genome.

I have a question about the result file.

I proceeded assembly with the hic integrated version, and as a result, I got the hap1 and hap2 genomes with good quality.

But what I'm curious about is that the contigs of hap1 and hap2 were separated based on the primary and alternative assembly due to the bubble and then assembled into hap1 and hap2.

Then, is there any result file that provides information about which contig of hap1 matched the contig of hap2, or which contig of hap1 corresponds to the contig of hap2?

Thank you.

Sincerely.

[chhylp123]

It is hard. But you can get this information by aligning hap1 to hap2 using minimap2.