Some other hic scaffolder

[xiekunwhy]

Hi,

I found some other hic scaffolders https://github.com/dfguan/pin_hic https://github.com/kingforest93/EndHiC(https://github.com/fanagislab/EndHiC) https://github.com/wtsi-hpag/scaffHiC

Best, Kun

[mdozmorov]

Thanks, Kun. I wish they would be published, or at least have preprints. If you are familiar with any, please, write a summary and make a PR.

[xiekunwhy]

Thank you for your reply, I am not so familiar whith them, and I am now trying them, I will make a PR if some of them have a good performance.

[xiekunwhy]

Hi,

The paper of pin_hic and endhic have been published. pin_hic: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-021-04453-5 endhic(preprint): https://arxiv.org/abs/2111.15411

endhic has a better performance than others if N90 is longer enough, in my opinion.

Best, Kun

[mdozmorov]

Thanks, Kun. Both are on my reading list