Run CS-CORE to infer the cell-type-specific co-expression network

Run CS-CORE on a Seurat object to infer the cell-type-specific co-expression network for a specified set of genes. Note that the Seurat object should have already been subsetted to cells from the same cell type, in order to infer cell-type-specific co-expressions.

Usage

CSCORE(object, genes, seq_depth = NULL)

Arguments

object

A Seurat single cell object

genes

A vector of gene names, for which the co-expression network will be estimated

seq_depth

A length n vector of sequencing depths. If "NULL", then it will be calculated as the total number of UMI counts in each cell

Value

A list of three p by p matrices:

est

co-expression estimates

p_value

p values

test_stat

test statistics

Examples

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