loss centromere contacts

zengxiaofei / HapHiC

HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data

https://www.nature.com/articles/s41477-024-01755-3

BSD 3-Clause "New" or "Revised" License

142 stars 10 forks source link

loss centromere contacts #62

Closed PengfeiInTuebingen closed 2 months ago

PengfeiInTuebingen commented 2 months ago

Hi, Very cool and easy to use tool for hi-c scaffolding! Based on the idea of centromere-to-centromere clustering, when i was doing manually curation for my genome, seems like i lost one of centromere interactions for a chromosome, attached is the plot, could you please comment on this?

Best, PF

zengxiaofei commented 2 months ago

Maybe the centromere of this chromosome was not successfully assembled or anchored.

zengxiaofei commented 2 months ago

Close this issue as there has been no response for two weeks.