Violin plot of feature values split by cell group

When feature is NULL (the default), automatically plots the QC metrics nCount_isoform, nFeature_isoform, and nPercent_isoform as a faceted panel.

Plots any feature – PSI event ID, junction ID, gene name, or metadata column – as a violin/box split by a cell-level grouping variable. When feature = NULL (the default), automatically plots the standard QC metrics nCount_isoform, nFeature_isoform, and nPercent_isoform as a faceted panel. Pass a character vector to feature to plot multiple features in facets with free y-axis scales.

Usage

PlotViolin(
  object,
  feature = NULL,
  group_by = "seurat_clusters",
  colours = NULL,
  add_points = FALSE,
  title = NULL,
  ncol = 2L,
  ...
)

# S4 method for class 'MatisseObject'
PlotViolin(
  object,
  feature = NULL,
  group_by = "seurat_clusters",
  colours = NULL,
  add_points = FALSE,
  title = NULL,
  ncol = 2L,
  ...
)

Arguments

object

A MatisseObject.

feature

Character scalar or vector of features to plot (PSI event IDs, junction IDs, gene names, or metadata column names). NULL (the default) selects the standard QC metrics automatically.

group_by

Character. Column in Seurat::meta.data to split cells by. Default: "seurat_clusters".

colours

Named character vector mapping group levels to colours. Default: NULL (uses ggplot2 defaults).

add_points

Logical. Overlay individual cell values as jittered points. Default: FALSE.

title

Character. Plot title. Defaults to the feature name when a single feature is requested; NULL for multiple features.

ncol

Integer. Number of facet columns when feature is a vector of length > 1. Default: 2.

...

Ignored; included for S4 generic compatibility.

Value

A ggplot object.

A ggplot object.