plotTree {CytoTree} | R Documentation

## plot MST of CYT

### Description

plot MST of CYT

### Usage

    plotTree(
      object,
      cex.size = 1,
      color.by = "cell.number",
      size.by = "cell.number",
      as.tree = FALSE,
      root.id = NULL,
      show.node.name = FALSE
    )

### Arguments

`object` | a CYT object
`cex.size` | numeric. size cex of the dot
`color.by` | numeric. size color theme of the dot
`size.by` | numeric. size theme of the dot
`as.tree` | logical. Whether to show node as tree
`root.id` | numeric. Root id of the tree, if as.tree is TRUE
`show.node.name` | logical. whether to show node name

### Value

ggplot2 figure

### Examples

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

    plotTree(cyt)

    plotTree(cyt, show.node.name = TRUE)

    plotTree(cyt, color.by = "CD43", show.node.name = TRUE, cex.size = 1)

    plotTree(cyt, color.by = "D0.percent", show.node.name = TRUE, cex.size = 1)

    plotTree(cyt, color.by = "D2.percent", show.node.name = TRUE, cex.size = 1)

    plotTree(cyt, color.by = "pseudotime", cex.size = 1)

[Package CytoTree version 1.0.3 Index]