DimPlot_All_Samples: DimPlot by Meta Data Column

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

DimPlot by Meta Data Column

Description

Creates DimPlot layout containing all samples within Seurat Object from orig.ident column

Usage

DimPlot_All_Samples(
  seurat_object,
  meta_data_column = "orig.ident",
  colors_use = "black",
  pt.size = NULL,
  aspect_ratio = NULL,
  title_size = 15,
  num_columns = NULL,
  reduction = NULL,
  dims = c(1, 2),
  raster = NULL,
  raster.dpi = c(512, 512),
  ...
)

Arguments

seurat_object	Seurat object name.
meta_data_column	Meta data column to split plots by.
colors_use	single color to use for all plots or a vector of colors equal to the number of plots.
pt.size	Adjust point size for plotting.
aspect_ratio	Control the aspect ratio (y:x axes ratio length). Must be numeric value; Default is NULL.
title_size	size for plot title labels.
num_columns	number of columns in final layout plot.
reduction	Dimensionality Reduction to use (if NULL then defaults to Object default).
dims	Which dimensions to plot. Defaults to c(1,2) if not specified.
raster	Convert points to raster format. Default is NULL which will rasterize by default if greater than 200,000 cells.
raster.dpi	Pixel resolution for rasterized plots, passed to geom_scattermore(). Default is c(512, 512).
...	Extra parameters passed to DimPlot.

Value

A ggplot object

Examples

library(Seurat)

pbmc_small$sample_id <- sample(c("sample1", "sample2"), size = ncol(pbmc_small), replace = TRUE)

DimPlot_All_Samples(seurat_object = pbmc_small, meta_data_column = "sample_id", color = "black",
num_columns = 2)

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