plotTree {flowSpy} | R Documentation

## plot MST of FSPY

### Description

plot MST of FSPY

### 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` | an FSPY 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

    if (FALSE) {

    plotTree(fspy)

    plotTree(fspy, show.node.name = T)

    plotTree(fspy, color.by = "CD43", show.node.name = T, cex.size = 1) +
        scale_colour_gradientn(colors = c("#00599F", "#EEEEEE", "#FF3222"))

    plotTree(fspy, color.by = "D0.percent", show.node.name = T, cex.size = 1) +
        scale_colour_gradientn(colors = c("#00599F", "#EEEEEE", "#FF3222"))

    plotTree(fspy, color.by = "D2.percent", show.node.name = T, cex.size = 1) +
        scale_colour_gradientn(colors = c("#00599F", "#EEEEEE", "#FF3222"))

    plotTree(fspy, color.by = "pseudotime", cex.size = 1) +
        scale_colour_gradientn(colors = c("#F4D31D", "#FF3222","#7A06A0"))

    }

[Package flowSpy version 1.4.0 Index]