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Some other hic scaffolder #8

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xiekunwhy opened this issue Oct 11, 2021 · 4 comments

xiekunwhy commented Oct 11, 2021

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

Owner

mdozmorov commented Oct 11, 2021

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.

Author

xiekunwhy commented Oct 12, 2021

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.

Author

xiekunwhy commented Dec 9, 2021 •

edited

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

Owner

mdozmorov commented Dec 9, 2021

Thanks, Kun. Both are on my reading list

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