Xiaofei Zeng

@tanghaibao Thank you for your reply! First of all, please forgive me for deleting the figures and modifying the spcies names in this issue. I used `--score=.5` for these analyses...

I also met the problem today. The script `partition_gmap.py` implements a multi-processing approach to separate homologous groups with the module `multiprocessing`. However, it does not catch any exceptions raised by...

Very nice theme 👍, but I have the same problem. 😢

I guess the problem emerged due to the way that Sabaki parses CSS files changed in the later version. I don't know how to correct it perfectly because I'm not...

Hi @zjygoo, Sorry for the delay. It seems that some groups were clustered together during reassignment. This could happen when some contigs from different chromosomes were not correctly separated. You...

Hi @YanChunL, Could you please create a new issue with as much of this information as possible (refer to: https://github.com/zengxiaofei/HapHiC/issues/32)? Best wishes, Xiaofei

Hi @RezwanCAAS, According to your heatmap, it seems that the homologous chromosomes were incorrectly clustered. How did you assemble the genome and which assembly did you use for scaffolding (e.g.,...

Hi @RezwanCAAS, You need to concatenate the contigs in the `hap*.p_ctg` files for scaffolding, rather than the `p_ctg` file. This is because that the contigs in `p_ctg` are not phased....

Hi @RezwanCAAS, It seems that the heatmap is clear enough. You can manually adjust it in Juicebox after importing the `.assembly` file with the "balanced" normalization. Best, Xiaofei

@RezwanCAAS Thanks for your sharing!