plotPseudotimeTraj {CytoTree} | R Documentation

## plotPseudotimeTraj

### Description

plotPseudotimeTraj

### Usage

    plotPseudotimeTraj(
      object,
      cutoff = -1,
      markers = NULL,
      size = 0.5,
      alpha = 0.6,
      print.curve = TRUE,
      var.cols = FALSE,
      plot.theme = theme_bw()
    )

### Arguments

`object` | An CYT object
`cutoff` | numeric. Cutoff of trajectory value
`markers` | character. Markers used in the calculation progress
`size` | numeric. Size of the dot
`alpha` | numeric. Transparency (0-1) of the dot, default is 1.
`print.curve` | logical. Whether to perform curve fitting
`var.cols` | logical. Whether to plot stage
`plot.theme` | themes from `ggplot2`

### Value

ggplot2 figure

### Examples

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

    plotPseudotimeTraj(cyt)
    plotPseudotimeTraj(cyt, print.curve = FALSE)
    plotPseudotimeTraj(cyt, var.cols = TRUE)

    plotPseudotimeTraj(cyt, markers = c("CD43", "CD34"))

[Package CytoTree version 1.4.0 Index]