Question: How to set 1Kb resolution for Hi-C Juicebox Visualization
gravatar for harikrishnanc903
2.3 years ago by
harikrishnanc90310 wrote:

I am using Homer tool to identify contact matrix in the genome. For visualization of contact matrics, I am using Juicebox. Using pre I have created Hi-C file from maketagdirectory. In Jucier tool the pre-command bin the reads at 9 base-pair-delimited resolutions: 2.5M, 1M, 500K, 250K, 100K, 50K, 25K, 10K, and 5K. I need to bin the reads at 1kb resolution. If anybody is an expert in this area kindly provide help. I have used the following command HiC_tag/ -juicerOpt "-r 5000,1000" -juicer auto -genome hg19 -p 30 in homer create *.hic files from maketagdirectory. The Perl code uses pre-command from Juicer tool to create Hi-C file.

chip-seq next-gen • 871 views
ADD COMMENTlink written 2.3 years ago by harikrishnanc90310
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1688 users visited in the last hour