library.size.normalize: Performs L1 normalization on input data such that the sum of...

In KrishnaswamyLab/phateR: PHATE - Potential of Heat-Diffusion for Affinity-Based Transition Embedding

Description

Performs L1 normalization on input data such that the sum of expression values for each cell sums to 1, then returns normalized matrix to the metric space using median UMI count per cell effectively scaling all cells as if they were sampled evenly.

Usage

library.size.normalize(data, verbose = FALSE)

Arguments

data	matrix (n_samples, n_dimensions) 2 dimensional input data array with n cells and p dimensions
verbose	boolean, default=FALSE. If true, print verbose output

Value

data_norm matrix (n_samples, n_dimensions) 2 dimensional array with normalized gene expression values

KrishnaswamyLab/phateR documentation built on Feb. 15, 2021, 4:22 a.m.