expr_data: Retrieve and set expression attribute

In csbl-usp/CEMiTool: Co-expression Modules identification Tool

Retrieve and set expression attribute

Description

Retrieve and set expression attribute

Usage

expr_data(cem, ...)

## S4 method for signature 'CEMiTool'
expr_data(cem, filter = TRUE, apply_vst = FALSE, filter_pval = 0.1, ...)

expr_data(cem) <- value

## S4 replacement method for signature 'CEMiTool'
expr_data(cem) <- value

Arguments

cem	Object of class CEMiTool
...	Additional parameters to filter_genes or select_genes functions.
filter	logical. If TRUE, retrieves filtered expression data (Default: TRUE)
apply_vst	logical. If TRUE, applies variance stabilizing transformation to expression data (Default: FALSE)
filter_pval	logical. Threshold for filter p-value. Ignored if filter = FALSE (Default: 0.1)
value	Object of class data.frame with gene expression data

Value

Object of class data.frame with gene expression data

Examples

# Initialize an empty CEMiTool object
cem <- new_cem()
# Get example expression data
data(expr0)
# Add expression file to CEMiTool object
expr_data(cem) <- expr0
# Check expression file
head(expr_data(cem))

csbl-usp/CEMiTool documentation built on March 27, 2024, 5:14 a.m.