Generate PCA heatmap plots for Tocky data (Timer-Blue vs Timer-Red 2d plots)

Generate PCA heatmap plots for Tocky data (Timer-Blue vs Timer-Red 2d plots)

Usage

PlotPCAHeatmap(
  x,
  ncol = 2,
  nrow = 1,
  jpeg = FALSE,
  select = FALSE,
  biplot_scaling = 3,
  colour = "Spectral",
  xlim = NULL,
  ylim = NULL
)

Arguments

x

A TockyPrepData object produced by the function Tocky

ncol

The number of columns in plot

nrow

The number of rows in plot

jpeg

A logical argument. If FALSE, it will open a device window in which plots are generated.

select

Whether to interactively select markers to be processed. If FALSE, all the log-transformed markers apart from Timer fluorescence (stored in the TockyPrepData) will be used.

biplot_scaling

A number for multiplying biplot values for visibility. Default is 3.

colour

Either 'Spectral' or 'BlueRed' for Angle colour key.

xlim

Optional x-axis limits.

ylim

Optional y-axis limits.

Value

Generates a CCA heatmap plot and optionally saves it as a jpeg file.

Examples

if (FALSE) { # \dontrun{
PlotPCAHeatmap(x)
} # }