cellSpreadPlot: Plot for 2D binning of data and tiling of cell pictures

In gerbeldo/tidycell: CellID Data Analysis Inside the Tidyverse

Plot for 2D binning of data and tiling of cell pictures

Description

Plot for 2D binning of data and tiling of cell pictures

Usage

cellSpreadPlot(
  cdata,
  paths,
  ch = "BF.out",
  boxSize = 80,
  xvar = "a.tot",
  yvar = "fft.stat",
  overlay_points = F,
  underlay_points = F,
  draw_contour_breaks = NULL,
  x.cuts = 7,
  y.cuts = 7,
  ...
)

Arguments

cdata	A Rcell data.frame (not the object).
paths	A paths dataframe with file path, t.frame, position and channel information of each picture.
ch	Name of the CellID channel (BF, BF.out, RFP, etc.). "BF.out" by default.
boxSize	Size of the box containing the individual cell images. 50 by default.
xvar	Strings indicating names for the variables to plot in the horizontal (x) and vertical (y) axis.
yvar	Strings indicating names for the variables to plot in the horizontal (x) and vertical (y) axis.
overlay_points	Overlay data points to the image plot.
underlay_points	Underlay data points to the image plot.
draw_contour_breaks	Overlay a ggplot2::stat_density2d layer. If TRUE, use the default breaks. Otherwise NULL for none, or a numeric vector for the density breaks.
x.cuts	Integers indicating the number of cuts for each variable.
y.cuts	Integers indicating the number of cuts for each variable.
...	Arguments passed on to magickCell.

gerbeldo/tidycell documentation built on Aug. 15, 2022, 2:35 p.m.