plotGate {prada} | R Documentation |
This functions visualize which observations are included in gates
defined by the functions gate.cytoFrame
, gate.cytoSet
,
and gate.matrix
. The make use of the visualization function
threePanelPlot
.
plot.cytoFrameGate(x, y, x.panels = c(1, 4, 5), y.panels = c(2, 3, 6), use.smoothScatter = TRUE, limits = c(0, 1023), plotTitle = "Gated Data", gate.colour = "red", new.device = TRUE, verbose = TRUE, ...)
x |
gate resulting, e.g., from function
gate.cytoFrame ; thus x is of class
cytoFrameGate or similar |
y |
the original data used to derive gate x , thus either a
cytoFrame , cytoSet or matrix |
x.panels |
which variables (columns) are to be plotted at the x-axis of the three variables |
y.panels |
which variables (columns) are to be plotted at the y-axis of the three variables |
use.smoothScatter |
logical, should the function
smoothScatter be employed for plotting the data
(plots data densities rather than individual points) |
limits |
minimum and maximum value (theoretically) observed in the data; e.g., with 10-channel digitized data it is c(0,1023) |
plotTitle |
title for the plot |
gate.colour |
which colour to use for observations within the
gate x |
new.device |
logical; should a new device be opened for the three
plots; if FALSE the three plots will be plotted to the
currently active device |
verbose |
logical; do you want extended output to STDOUT |
... |
further arguments passed on to plot.default |
No value is returned. These functions are called for producing the three plots.
Joern Toedling toedling@ebi.ac.uk
# see the example in function 'gate.cytoFrame'