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Aiden Lab edited this page Jun 26, 2017 · 21 revisions



What is Juicer?

Juicer is a one-click pipeline for processing terabase scale Hi-C datasets. Using Juicer, you can

  • Go from raw fastq files to Hi-C maps binned at many resolutions
  • Automatically annotate loops and contact domains with the Juicer tools
  • Run the pipeline in the cloud, on LSF, Univa, or SLURM, or on a single CPU

Juicer creates hic files from raw (unaligned) reads derived from a Hi-C experiment.

Juicer Tools Pre creates hic files from aligned Hi-C reads (i.e., lists of Hi-C contacts).

Follow the links below to get started: