How to set 1Kb resolution for Hi-C Juicebox Visualization
0
0
Entering edit mode
5.7 years ago

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

tagDir2hicFile.pl HiC_tag/ -juicerOpt "-r 5000,1000" -juicer auto -genome hg19 -p 30

tagDir2hicFile.pl 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 • 1.8k views
ADD COMMENT

Login before adding your answer.

Traffic: 1870 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6