cytof_colorPlot {cytofkit}R Documentation

Plot the data with color-coded marker values

Description

Plot the data with color-coded marker values

Usage

cytof_colorPlot(data, xlab, ylab, zlab, colorPalette = c("bluered",
  "spectral1", "spectral2", "heat"), limits = c(quantile(data[, zlab], 0.02),
  quantile(data[, zlab], 0.98)), pointSize = 0.5, alpha = 1,
  removeOutlier = TRUE)

Arguments

data

A dataframe containing the xlab, ylab and zlab.

xlab

The column name of data for x lab.

ylab

The column name of data for y lab.

zlab

The column name of data for z lab.

colorPalette

Color Palette.

limits

Range for z lab, defaults to existing min, and max set at 98th percentile value.

pointSize

Size of the point.

alpha

Transparency of point. 1 is opaque, 0 is completely transparent.

removeOutlier

If TRUE, remove the outliers.

Value

A ggplot object.

Examples

x <- c(rnorm(100, mean = 1), rnorm(100, mean = 3), rnorm(100, mean = 9))
y <- c(rnorm(100, mean = 2), rnorm(100, mean = 8), rnorm(100, mean = 5))
c <- rnorm(300, 10, 5)
data <- data.frame(dim1 = x, dim2 = y, marker = c)
cytof_colorPlot(data = data, xlab = "dim1", ylab = "dim2", zlab = "marker")

[Package cytofkit version 1.12.0 Index]