Hi, guys
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!
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written
by
woongjaej •
1 answer
To start, you can check this paper, "4C-seq from beginning to end: A detailed protocol for sample preparation and data analysis," and relevant repos for computational processing and analyses (pipe4C and peak4C).
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