How to set the chromosome number if I use p_ctg.fa from hifiasm when running haphic pipeline

[utpala101]

Thank you for your excellent work! I wonder if I run the haphic pipeline correctly. I have a genome of 4G (a diploid, 2n=26), and I just use the p_ctg.fa file from hifiasm and HiC data. When I run the pipeline I set the nchr as 13, and I have a good result. But when I saw the issue I found that some users used combined hap*.p_ctg file to run the pipeline, and set the nchr as doubled (in my case as 26). So I wonder if I run it correctly, I just want a scaffold genome of haploid, and the HiC contact map of 13 chromosomes by the way.

Appreciate for your early reply!