Xiaofei Zeng

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

It could be a network issue. You may need to check whether the Conda server is accessible in your network. You could also try using a mirror, such as https://mirrors4.tuna.tsinghua.edu.cn/help/anaconda/?eqid=d6e48d3c0005a83700000006646e291f.

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

Hi @gunjanpandey, You are currently using an outdated version of `juicer_pre` instead of my modified version of `juicer`. Please download and compile my updated version from this link: https://github.com/zengxiaofei/yahs. After...

I am not the author of YaHS; you may need to ask @c-zhou by creating a new issue. My modified version of `juicer` is deposited in [another repository](https://github.com/zengxiaofei/yahs) based on...

Hi Chenxi, > May I ask if this applies to all juicer_tools versions? I have not tested different versions of juicer_tools yet. But I think they should be compatible, the...

Hi Kenny @kaskelso, The `.review.assembly` file you exported should be fine. The scale factor is actually applied to the `.hic` file. So what you need to do is simply use...

> (1) Can I determine how many the chromosome sets are by Hi-C analysis of haphic? This information can be inferred from 1) self-alignment, 2) alignment to other species, and...

> So I chose the p_ctg as input for scaffolding a haplotype collapsed genome. The p_ctg version is not correctly phased. The contigs in it may contain randomly joined long...

> I have tried unitigs for scaffolding, but the utg N50 (1.2Mb) is much smaller than ctg N50 (21Mb), resulting much more fragmented pseudochromosomes and making it more complicated to...