create.pseudobulk: Reformat count matrix to 3D pseudocount matrix

In heiniglab/scPower: Experimental design framework for scRNAseq population studies (eQTL and DE)

Reformat count matrix to 3D pseudocount matrix

Description

Sum up the counts per cell type and individual for each gene and create a 3 dimensional matrix of genes x individuals x cell types

Usage

create.pseudobulk(expr.singlets, annotation, colName = "cell.type")

Arguments

expr.singlets	gene count matrix (already filtered for multiplets etc.)
annotation	Data frame with annotation of each cell to a cell type and donor, the data frame must be sorted in the same way as the expression matrix (required columns: individual)
colName	Column name of the cell type annotation in the annotation data frame

Value

3d matrix of genes x individuals x cell type

heiniglab/scPower documentation built on Jan. 9, 2025, 12:13 p.m.