data_transform: Pseudotime based Expression Data Transformation

In pGRN: Single-Cell RNA Sequencing Pseudo-Time Based Gene Regulatory Network Inference

Pseudotime based Expression Data Transformation

Description

Based on single-cell pseudotime information, get the sliding window average expression, and then standard normlize the expression for each gene

Usage

data_transform(data, pseudotime, slide_window_size = 100, slide_step_size = 50)

Arguments

data	expression matrix data
pseudotime	list of pseudotime
slide_window_size	sliding window size
slide_step_size	sliding window step size

Value

Transformed new matrix

Examples

data <- matrix(1,100,1000)
ptime <- seq(1:1000)
data_transform(data,
               ptime,
               slide_window_size=100,
               slide_step_size=50)

pGRN documentation built on Jan. 18, 2023, 1:06 a.m.