Visualize Differentially Expressed Programs with volcano plots

Creates volcano plots showing fold enrichment vs. statistical significance for differentially expressed NMF programs across cell types.

Usage

plotDEPsVolcano(
  deps_results,
  cell_types = NULL,
  fold_threshold = 1.5,
  pval_threshold = 0.05,
  top_n = 5,
  ncol = 3
)

Arguments

deps_results

List of DataFrames from FindAllDEPs()

cell_types

Character vector, which cell types to plot (default: all)

fold_threshold

Numeric, fold enrichment threshold for significance (default 1.5)

pval_threshold

Numeric, p-value threshold for significance (default 0.05)

top_n

Integer, number of top programs to label (default 5)

ncol

Integer, number of columns for faceting (default 3)

Value

A ggplot object

Examples

deps <- FindAllDEPs(sce, "cell_type") 
#> Error: object 'sce' not found
plotDEPsVolcano(deps)
#> Error: object 'deps' not found