PlotCountDist

Generates violin plots with embedded boxplots showing the distribution of normalized or VST-transformed RNA-Seq counts for each sample in a geneda object. Optionally, plots can be faceted by a metadata variable.

PlotCountDist(object, split_by = NULL)

Arguments

object

A geneda object containing normalized expression values in @normalized and sample metadata in @metadata.

split_by

Character. Optional column name from object@metadata used for faceting (default: NULL, no faceting).

Value

A ggplot2 object displaying the distribution of counts per sample.

Examples

if (FALSE) { # \dontrun{
# Basic plot without faceting
PlotCountDist(obj)

# Facet by a metadata variable "condition"
PlotCountDist(obj, split_by = "condition")
} # }

# \donttest{
mock_norm <- matrix(rnorm(12, mean = 0, sd = 2), nrow = 4, ncol = 3)
colnames(mock_norm) <- paste0("Sample", 1:3)
rownames(mock_norm) <- paste0("Gene", 1:4)
mock_meta <- data.frame(condition = c("A","B","A"), row.names = colnames(mock_norm))
obj <- GenEDA(normalized = mock_norm, metadata = mock_meta)
PlotCountDist(obj)

# }