plotmclust: plotmclust

In TSCAN: Tools for Single-Cell Analysis

Description

Plot the model-based clustering results

Usage

plotmclust(
  mclustobj,
  x = 1,
  y = 2,
  MSTorder = NULL,
  show_tree = T,
  show_cell_names = T,
  cell_name_size = 3,
  markerexpr = NULL
)

Arguments

mclustobj	The exact output of exprmclust function.
x	The column of data after dimension reduction to be plotted on the horizontal axis.
y	The column of data after dimension reduction to be plotted on the vertical axis.
MSTorder	The arbitrary order of cluster to be shown on the plot.
show_tree	Whether to show the links between cells connected in the minimum spanning tree.
show_cell_names	Whether to draw the name of each cell in the plot.
cell_name_size	The size of cell name labels if show_cell_names is TRUE.
markerexpr	The gene expression used to define the size of nodes.

Details

This function will plot the gene expression data after dimension reduction and show the clustering results.

Value

A ggplot2 object.

Author(s)

Zhicheng Ji, Hongkai Ji <[e-mail]>

Examples

data(lpsdata)
procdata <- preprocess(lpsdata)
lpsmclust <- exprmclust(procdata)
plotmclust(lpsmclust)

Example output

TSCAN documentation built on Nov. 8, 2020, 5:13 p.m.