showPattern3D: showPattern3D
In RubD/Giotto: Spatial Single-Cell Transcriptomics Toolbox

showPattern3D

R Documentation

showPattern3D

Description

show patterns for 3D spatial data

Usage

showPattern3D(
  gobject,
  spatPatObj,
  dimension = 1,
  trim = c(0.02, 0.98),
  background_color = "white",
  grid_border_color = "grey",
  show_legend = T,
  point_size = 1,
  axis_scale = c("cube", "real", "custom"),
  custom_ratio = NULL,
  x_ticks = NULL,
  y_ticks = NULL,
  z_ticks = NULL,
  show_plot = NA,
  return_plot = NA,
  save_plot = NA,
  save_param = list(),
  default_save_name = "showPattern3D"
)

Arguments

`gobject`	giotto object
`spatPatObj`	Output from detectSpatialPatterns
`dimension`	dimension to plot
`trim`	Trim ends of the PC values.
`background_color`	background color for plot
`grid_border_color`	color for grid
`show_legend`	show legend of plot
`point_size`	adjust the point size
`axis_scale`	scale the axis
`custom_ratio`	cutomize the scale of the axis
`x_ticks`	the tick number of x_axis
`y_ticks`	the tick number of y_axis
`z_ticks`	the tick number of z_axis
`show_plot`	show plot
`return_plot`	return plot object
`save_plot`	directly save the plot [boolean]
`save_param`	list of saving parameters, see `showSaveParameters`
`default_save_name`	default save name for saving, don't change, change save_name in save_param