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Comment
. 2018 Feb 28;15(3):155-156.
doi: 10.1038/nmeth.4583.

hichipper: a preprocessing pipeline for calling DNA loops from HiChIP data

Caleb A Lareau  1   2   3 , Martin J Aryee  1   2   3   4
Affiliations
Comment

hichipper: a preprocessing pipeline for calling DNA loops from HiChIP data

Caleb A Lareau et al. Nat Methods. .
No abstract available

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Conflict of interest statement

COMPETING FINANCIAL INTERESTS

The authors declare no competing financial interests.

Figures

Figure 1 |
Figure 1 |
Overview of the hichipper analysis pipeline. (a) hichipper requires aligned and annotated interaction files from preprocessing tools such as Hi-C Pro as well as a .bed file of restriction sites. The output of hichipper can be used for quality control, visualization, and downstream topology analysis of HiChIP data. (b) Ratio of per-base coverage to local MACS-estimated local window background signal as a function of distance to nearest MboI cut site for a HiChIP sample (blue) and a ChIP-seq sample (red). Both samples represent published mouse embryonic stem cells (ESCs) with SMC1 (cohesin) ChIP.
See this image and copyright information in PMC

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References

    1. Mumbach MR et al. Nat. Methods 13, 919–922 (2016). - PMC - PubMed
    1. Servant N et al. Genome Biol. 16, 259 (2015). - PMC - PubMed

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