cyto_plot_point: Add points and contour lines to empty cyto_plot

In DillonHammill/CytoExploreR: Interactive Analysis of Cytometry Data

Add points and contour lines to empty cyto_plot

Description

Add points and contour lines to empty cyto_plot

Usage

cyto_plot_point(x, ...)

## S3 method for class 'flowFrame'
cyto_plot_point(
  x,
  channels,
  overlay = NA,
  display = 1,
  point_shape = ".",
  point_size = 2,
  point_col_scale = NA,
  point_cols = NA,
  point_col = NA,
  point_col_alpha = 1,
  contour_lines = 0,
  contour_line_type = 1,
  contour_line_width = 1,
  contour_line_col = "black",
  contour_line_alpha = 1,
  ...
)

## S3 method for class 'list'
cyto_plot_point(
  x,
  channels,
  display = 1,
  point_shape = ".",
  point_size = 2,
  point_col_scale = NA,
  point_cols = NA,
  point_col = NA,
  point_col_alpha = 1,
  contour_lines = 0,
  contour_line_type = 1,
  contour_line_width = 1,
  contour_line_col = "black",
  contour_line_alpha = 1,
  ...
)

Arguments

x	object of class flowFrame or a list of flowFrame onjects.
...	not in use.
channels	names of the channels used to construct the plot.
overlay	optional argument if x is a flowFrame to overlay a list of flowFrame objects.
display	controls the number or percentage of events to display, set to 1 by default to display all events.
point_shape	shape(s) to use for points in 2-D scatterplots, set to "." by default to maximise plotting speed. See pch for alternatives.
point_size	numeric to control the size of points in 2-D scatter plots set to 2 by default.
point_col_scale	vector of ordered colours to use for the density colour gradient of points.
point_cols	vector colours to draw from when selecting colours for points if none are supplied to point_col.
point_col	colour(s) to use for points in 2-D scatter plots, set to NA by default to use a blue-red density colour scale.
point_col_alpha	numeric [0,1] to control point colour transparency in 2-D scatter plots, set to 1 by default to use solid colours.
contour_lines	numeric indicating the number of levels to use for contour lines, set to 0 by default to exclude contour lines.
contour_line_type	type of line to use for contour lines, set to 1 by default.
contour_line_width	line width for contour lines, set to 2 by default.
contour_line_col	colour to use for contour lines, set to "black" by default.
contour_line_alpha	numeric [0,1] to control transparency of contour lines, set to 1 by default to remove transparency.

Author(s)

Dillon Hammill, [e-mail]

DillonHammill/CytoExploreR documentation built on June 8, 2025, 3:05 a.m.