scCustomize (version 3.0.0)

VariableFeaturePlot_scCustom: 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,
  ...
)

Value

A ggplot object

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.

Examples

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