VariableFeaturePlot_scCustom: Custom Labeled Variable Features Plot

In samuel-marsh/scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing

Custom Labeled Variable Features Plot

Description

Creates variable features plot with N number of features already labeled by default.

Usage

VariableFeaturePlot_scCustom(
  seurat_object,
  num_features = 10,
  custom_features = NULL,
  label = TRUE,
  pt.size = 1,
  colors_use = c("black", "red"),
  repel = TRUE,
  y_axis_log = FALSE,
  assay = NULL,
  selection.method = NULL,
  ...
)

Arguments

seurat_object	Seurat object name.
num_features	Number of top variable features to highlight by color/label.
custom_features	A vector of custom feature names to label on plot instead of labeling top variable genes.
label	logical. Whether to label the top features. Default is TRUE.
pt.size	Adjust point size for plotting.
colors_use	colors to use for plotting. Default is "black" and "red".
repel	logical (default TRUE). Whether or not to repel the feature labels on plot.
y_axis_log	logical. Whether to change y axis to log10 scale (Default is FALSE).
assay	Assay to pull variable features from.
selection.method	If more then one method use to calculate variable features specify which method to use for plotting. See selection.method parameter in VariableFeaturePlot for list of options.
...	Extra parameters passed to VariableFeaturePlot.

Value

A ggplot object

Examples

library(Seurat)
VariableFeaturePlot_scCustom(seurat_object = pbmc_small, num_features = 10)

samuel-marsh/scCustomize documentation built on Dec. 20, 2024, 7:41 a.m.