MultiFeaturePlot: Plot FeaturePlots for a list of genes

In alexthiery/scHelper: R package containing helper functions for single cell analysis

Plot FeaturePlots for a list of genes

Description

This function plots UMAPs for a series of nine cluster resolutions, alongside a clustree which reveals the relationship between clusters at different resolutions

Usage

MultiFeaturePlot(
  seurat_object,
  gene_list,
  plot_stage = FALSE,
  stage_col = "orig.ident",
  plot_clusters = TRUE,
  cluster_col = "seurat_clusters",
  plot_celltype = FALSE,
  celltype_col = NA,
  n_col = 4,
  label = "UMAP plots for GOI on normalised filtered data"
)

Arguments

seurat_object	Seurat object
gene_list	genes to plot DimPlots for
plot_stage	boolean for whether to plot DimPlot for developmental stage
stage_col	[e-mail] column used to plot developmental stage
plot_clusters	boolean for whether to plot DimPlot for clusters
cluster_col	[e-mail] column used to plot clusters
plot_celltype	boolean for whether to plot DimPlot for celltype
celltype_col	[e-mail] column used to plot celltype
label	plot title

Value

plot generated by grid extra

alexthiery/scHelper documentation built on Aug. 26, 2023, 3:42 p.m.