Changes between Version 7 and Version 8 of SOPs/Hi-C


Ignore:
Timestamp:
07/31/25 11:26:15 (2 months ago)
Author:
gbell
Comment:

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  • SOPs/Hi-C

    v7 v8  
    44The  [[https://science.sciencemag.org/content/326/5950/289 | Hi-C method]] Hi-C method generalizes earlier experimental techniques, such as 3C or 5C,  for characterizing contacts between specific chromosomal loci, to enable unbiased identification of chromatin interactions across an entire genome.  Two software pipelines for analyzing data from Hi-C experiments are [[https://github.com/aidenlab/juicer | juicer]] and  [[https://github.com/nservant/HiC-Pro | HiC-Pro]].
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    6 Instructions for running juicer on Whitehead computing resources is as follows, using juicer 1.6 with a shell script designed to be run on a slurm cluster.  Start in the folder with your fastq files.
     6Instructions for running juicer on Whitehead computing resources is as follows, using juicer 1.6 with a shell script designed to be run on a slurm cluster (using a queue called '20').  Start in the folder with your fastq files.
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    88{{{