spatDeconvPlot#

Last Updated: Mar 11, 2023

Description#

Visualize cell type enrichment / deconvolution results in a scatterpie

Usage#

spatDeconvPlot(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  deconv_name = "DWLS",
  show_image = F,
  gimage = NULL,
  image_name = NULL,
  largeImage_name = NULL,
  spat_loc_name = NULL,
  sdimx = "sdimx",
  sdimy = "sdimy",
  cell_color_code = NULL,
  line_color = NA,
  radius = 10,
  alpha = 1,
  legend_text = 8,
  background_color = "white",
  title = NULL,
  axis_text = 8,
  axis_title = 8,
  coord_fix_ratio = 1,
  show_plot = NA,
  return_plot = NA,
  save_plot = NA,
  save_param = list(),
  default_save_name = "spatDeconvPlot"
)

Arguments#

`gobject`	giotto object
`spat_unit`	spatial unit
`feat_type`	feature type
`deconv_name`	name of deconvolution results to use
`show_image`	show a tissue background image
`gimage`	a giotto image
`image_name`	name of a giotto image
`largeImage_name`	name of a giottoLargeImage
`spat_loc_name`	name of spatial locations
`sdimx`	x-axis dimension name (default = ‘sdimx’)
`sdimy`	y-axis dimension name (default = ‘sdimy’)
`cell_color_code`	named vector with colors
`line_color`	color of line within pie charts
`radius`	radios of pie charts
`alpha`	alpha of pie charts
`legend_text`	size of legend text
`background_color`	color of plot background
`title`	title for plot (default = deconv_name)
`axis_text`	size of axis text
`axis_title`	size of axis title
`coord_fix_ratio`	fix ratio between x and y-axis
`show_plot`	show plot
`return_plot`	return ggplot object
`save_plot`	directly save the plot [boolean]
`save_param`	list of saving parameters from `all_plots_save_function`
`default_save_name`	default save name for saving, don’t change, change save_name in save_param

Details#

Description of parameters.

Value#

ggplot