I have 3c seq fastq raw data.
I searched how to analysis 3c seq data and got confused.
I think basic analysis pipeline of 3c seq is different from other sequencings, right?
For example, for other sequencing data, I first trim and QC the raw reads and get in to alignment with reference genome. But I found for 3c seq data somehow a bit different.
Could some one have experience in 3c 4c seq data analysis, give me the basic concept of 3c 4c seq analysis?? (ex. step1 trim, step2 align ....) And I found some packages for analysing 3c seq data saying virtual fragment libraries. What is virtual fragment library?
Any help will be very grateful for me....
Thank you guys!