eset_distribution: Visualize Expression Set Distribution

In IOBR: Immune Oncology Biological Research

Visualize Expression Set Distribution

Description

Generates boxplots and density plots to analyze the distribution of expression values in an expression set. Useful for quality control and assessing data normalization.

Usage

eset_distribution(eset, quantile = 3, log = TRUE, project = NULL)

Arguments

eset	Expression matrix or data frame with genes in rows and samples in columns.
quantile	Integer specifying the divisor for sampling columns. Default is 3 (samples 1/3 of columns).
log	Logical indicating whether to perform log2 transformation. Default is 'TRUE'.
project	Optional output directory path for saving files. If 'NULL', no files are saved. Default is 'NULL'.

Value

Invisibly returns 'NULL'. If 'project' is provided, saves PNG files to disk.

Examples

# Simulate data
set.seed(123)
sim_eset <- matrix(rnorm(1000 * 10, mean = 5, sd = 2), 1000, 10)
rownames(sim_eset) <- paste0("Gene", 1:1000)
colnames(sim_eset) <- paste0("Sample", 1:10)

# Run distribution plot
result <- eset_distribution(sim_eset)

IOBR documentation built on May 30, 2026, 5:07 p.m.