normalise_by_window_width: normalise counts by window width (counts / window width)

Description Usage Arguments Value

Description

normalise counts by window width (counts / window width)

Usage

1
normalise_by_window_width(data, which = "bait_windows", per = 1000)

Arguments

data

a list of SummarizedExperiment objects from atacr::make_counts()

which

the subset of the data to normalise. Default = bait_windows

per

= the expression count / width gives the reads in the window divided by the width, so a 3000 nt gene with 30000 reads mapping to it will have a read count of just 10. Setting this parameter allows you to represent the counts per some other number of nts. Default = 1000, so gives the reads per kb of the gene.

Value

SummarizedExperiment object with normalised counts


TeamMacLean/atacr documentation built on May 9, 2019, 4:24 p.m.