supercell_GE_idx: Simplification of scRNA-seq dataset (old version, not used...

In SuperCell: Simplification of scRNA-Seq Data by Merging Together Similar Cells

Simplification of scRNA-seq dataset (old version, not used since 12.02.2021)

Description

This function converts gene-expression matrix of single-cell data into a gene expression matrix of super-cells

Usage

supercell_GE_idx(ge, groups, weights = NULL, do.median.norm = FALSE)

Arguments

ge	gene expression matrix (or any coordinate matrix) with genes as rows and cells as cols
groups	vector of membership (assignment of single-cell to super-cells)
weights	vector of a cell weight (NULL by default), used for computing average gene expression withing cluster of super-cells
do.median.norm	whether to normalize by median value (FALSE by default)

Value

a matrix of simplified (averaged withing groups) data with ncol equal to number of groups and nrows as in the initial dataset

SuperCell documentation built on Oct. 25, 2024, 5:07 p.m.