The kmer graph distribution is strange

[pzx6]

Hello,

This is similar to issue#93 but for me it is unsolved yet. I am running hifiasm v 0.16.1-r375 to assemble ~1Gb genome. My hifi fasta file size is about 50Gb . All files are output normally， but The test.p_ctg.gfa size （2.3Gb）is much larger than estimated, and the contig （～300kb） is also much shorter than that obtained by ONT（～800kb），Genomic survey revealed a heterozygosity of 0.56%, repetitive sequences ~60% My command hifiasm --primary -t 30 -o test test.fa.gz 2>test.log

The log is attached. test.log

Any idea what's wrong there?

[lh3]

This is probably not HiFi data.

[pzx6]

This is probably not HiFi data. Part of the file

[chhylp123]

As Heng said, it might be not HiFi reads or low-quality HiFi reads. There are several examples (see: https://hifiasm.readthedocs.io/en/latest/faq.html#why-does-hifiasm-stuck-or-crash).