Plot the distribution of the observed cells at each node of the binary tree built using CytomeTree.

Usage

plot_nodes(
  CytomeTreeObj,
  nodes = NULL,
  nodesPerCol = NULL,
  nodesPerRow = NULL,
  ...
)

Arguments

CytomeTreeObj: An object of class CytomeTree.
nodes: A list of character elements containing the name of the nodes for which the distribution is to be plotted. Default is NULL, and plots the distribution for each node.
nodesPerCol: an integer specifying the number of plots to be displayed per column when plotting multiple nodes at once. Default is NULL.
nodesPerRow: an integer specifying the number of plots to be displayed per row when plotting multiple nodes at once. Default is NULL.
...: further arguments to be passed to plot_grid.

Value

a list of ggplot2 plot objects, containing each node plot.

Details

if both nodesPerCol and nodesPerRow are NULL then all the nodes are plotted on a single page.

"GM" stands for "Gaussian mixture" and "KDE" stands for "Kernel Density Estimation".

Author

Chariff Alkhassim, Boris Hejblum

Examples


data(DLBCL)
myct <- CytomeTree(DLBCL[, c("FL1", "FL2", "FL4")], minleaf = 1, t=.1)
#> 
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plot_nodes(myct)