plotPieCluster: Visualization pie plot of cluster data of CYT

In JhuangLab/CytoTree: A Toolkit for Flow And Mass Cytometry Data

Description

Visualization pie plot of cluster data of CYT

Usage

plotPieCluster(
  object,
  item.use = c("PC_1", "PC_2"),
  cex.size = 1,
  size.by.cell.number = TRUE,
  main = "2D pie plot of CYT",
  plot.theme = theme_bw()
)

Arguments

object	A CYT object
item.use	character. Items use to 2D plot, axes x and y must be numeric.
cex.size	numeric. Size of the dot
size.by.cell.number	logical. Whether to show size of cell number.
main	character. Title of the plot.
plot.theme	themes from ggplot2

Value

ggplot2 figure

Examples

cyt.file <- system.file("extdata/cyt.rds", package = "CytoTree")
cyt <- readRDS(file = cyt.file)

# Runs only have more than two stages
plotPieCluster(cyt, cex.size = 0.5)

plotPieCluster(cyt, item.use = c("PC_1", "PC_2"), cex.size = 0.5)
plotPieCluster(cyt, item.use = c("PC_2", "PC_3"), cex.size = 0.5)

plotPieCluster(cyt, item.use = c("tSNE_1", "tSNE_2"), cex.size = 20)

plotPieCluster(cyt, item.use = c("DC_1", "DC_2"), cex.size = 0.5)

plotPieCluster(cyt, item.use = c("UMAP_1", "UMAP_2"), cex.size = 1)
plotPieCluster(cyt, item.use = c("UMAP_1", "UMAP_2"), cex.size = 1) 

JhuangLab/CytoTree documentation built on Nov. 16, 2020, 7:23 a.m.