Normalization of Hi-C data

Question

[ankitplusplus]

Hi everyone,

Does Hi-C data normalization technique depends upon the sequencing depth? Can any one suggest me which normalization will be best for high coverage (around 40X) and low coverage (< 5X).

Answer 1

[Ryan Dale]

I don't have a direct answer for your question, but you might want to check out HiFive (paper, github) which has three separate normalization strategies you can apply alone or in combination.