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Compute Vanilla Count Correction.

Source: R/VCnorm.R
VCnorm.Rd

Compute Vanilla Count or Vanilla Count square root correction normalization on hic maps.

Usage

VCnorm(hic = NULL, qtlTh = 0.15, vcsqrt = TRUE)

Arguments

hic

: The HiC maps chunk to normalize.

qtlTh

: The threshold quantile below which the bins will be ignored. (Default 0.15)

vcsqrt

: Whether the square root should be applied. (Default TRUE)

Value

A matrices list.

Details

VCnorm

Examples

# Data
data(HiC_Ctrl.cmx_lst)

HiC_Ctrl_VC.cmx <- VCnorm(HiC_Ctrl.cmx_lst[["2L_2L"]])
HiC_Ctrl_VC_SQRT.cmx <- VCnorm(HiC_Ctrl.cmx_lst[["2L_2L"]], vcsqrt = TRUE)