rawEnrichmentAnalysis: Calculated raw xCell enrichment scores

View source: R/xCell.R

rawEnrichmentAnalysisR Documentation

Calculated raw xCell enrichment scores

Description

rawEnrichmentAnalysis Returns the raw xCell cell types enrichment scores.

Usage

rawEnrichmentAnalysis(expr, signatures, genes, file.name = NULL,
  parallel.sz = 4, parallel.type = "SOCK")

Arguments

expr

the gene expression data set. A matrix with row names as symbols and columns as samples.

signatures

a GMT object of signatures.

genes

list of genes to use in the analysis.

file.name

string for the file name for saving the scores. Default is NULL.

parallel.sz

integer for the number of threads to use. Default is 4.

parallel.type

Type of cluster architecture when using snow. 'SOCK' or 'FORK'. Fork is faster, but is not supported in windows.

Value

the raw xCell scores


dviraran/xCell documentation built on May 3, 2024, 7:17 p.m.