supercell_DimPlot: Plot metacell 2D plot (PCA, UMAP, tSNE etc)

In SuperCell: Simplification of scRNA-Seq Data by Merging Together Similar Cells

Plot metacell 2D plot (PCA, UMAP, tSNE etc)

Description

Plots 2d representation of metacells

Usage

supercell_DimPlot(
  SC,
  groups = NULL,
  dim.name = "PCA",
  dim.1 = 1,
  dim.2 = 2,
  color.use = NULL,
  asp = 1,
  alpha = 0.7,
  title = NULL,
  do.sqtr.rescale = FALSE
)

Arguments

SC	SuperCell computed metacell object (the output of SCimplify)
groups	an assigment of metacells to any group (for ploting in different colors)
dim.name	name of the dimensionality reduction to plot (must be a field in SC)
dim.1	dimension to plot on X-axis
dim.2	dimension to plot on Y-axis
color.use	colros to use for groups, if NULL, an automatic palette of colors will be applied
asp	aspect ratio
alpha	a rotation of the layout (either provided or computed)
title	a title of a plot
do.sqtr.rescale	whether to sqrt-scale node size (to balance plot if some metacells are large and covers smaller metacells)

Value

ggplot

SuperCell documentation built on Oct. 25, 2024, 5:07 p.m.