getNormalizationMatrix: Get normalization matrix

View source: R/analyzeUMI4C.R

getNormalizationMatrixR Documentation

Get normalization matrix

Description

Will return a normalization matrix.

Usage

getNormalizationMatrix(
  umi4c,
  norm_bins = 10^(3:6),
  post_smooth_win = 50,
  r_expand = 1.2
)

Arguments

umi4c

UMI4C object as generated by makeUMI4C.

norm_bins

Numeric vector with the genomic bins to use for normalization. Default: 1K, 10K, 100K, 1Mb.

post_smooth_win

Numeric indicating the smoothing window to use. Default: 50.

r_expand

Numeric indicanting the expansion value for normalization. Default: 1.2.

Value

Creates a matrix of normalization factors using as a reference the profile specified in the UMI4C object.


Pasquali-lab/UMI4Cats documentation built on March 23, 2024, 9:42 p.m.