WilcoxTest: Differential expression using wilcox

In Coolgenome/iTALK: Characterize and Illustrate Intercellular Communication

Description

Identifies differentially expressed genes between two groups of cells using a Wilcoxon Rank Sum test

Usage

WilcoxTest(sub_data, min_gene_expressed, min_valid_cells,
  contrast = unique(sub_data$compare_group), datatype = "raw count",
  verbose = 0)

Arguments

sub_data	Count data removed cell_type and selected certain two compare_group
min_gene_expressed	Genes expressed in minimum number of cells
min_valid_cells	Minimum number of genes detected in the cell
contrast	String vector specifying the contrast to be tested against the log2-fold-change threshold
verbose	Whether show the progress of computing
data_type	Type of data. Available options are: 'raw data': Raw count data without any pre-processing 'log count': Normalized and log-transformed data

Value

A matrix of differentially expressed genes and related statistics.

Coolgenome/iTALK documentation built on Aug. 3, 2019, 3:12 p.m.