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Published May 6, 2019 | Version v1.0
Software Open

nf-core/hic: Initial release of nf-core/hic

  • 1. Institut Curie
  • 2. @qbicsoftware

Description

First version of nf-core Hi-C pipeline based on the HiC-Pro pipeline. The current version supports most protocols including Hi-C, in situ Hi-C, DNase Hi-C, Micro-C, capture-C or HiChip data.

NEW FEATURES
  • Automatic detection and generation of annotation files
  • Two-steps alignment of raw sequencing reads
  • Reads filtering and detection of valid interaction products
  • Generation of raw contact matrices for a set of resolutions
  • Normalization of the contact maps using the ICE algorithm
  • Generation of cooler file for visualization on higlass
  • Quality report based on HiC-Pro MultiQC module

Files

nf-core/hic-v1.0.zip

Files (129.9 kB)

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