plot_giottoLargeImage: plot_giottoLargeImage
In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

plot_giottoLargeImage

R Documentation

plot_giottoLargeImage

Description

Plot a downsampled version of giottoLargeImage. Cropping can increase plot resolution of region of interest.

Usage

plot_giottoLargeImage(
  gobject = NULL,
  largeImage_name = NULL,
  giottoLargeImage = NULL,
  crop_extent = NULL,
  xmax_crop = NULL,
  xmin_crop = NULL,
  ymax_crop = NULL,
  ymin_crop = NULL,
  max_intensity = NULL,
  asRGB = FALSE,
  stretch = NULL
)

Arguments

`gobject`	giotto object
`largeImage_name`	name of giottoLargeImage
`giottoLargeImage`	giottoLargeImage object
`crop_extent`	(optional) extent object to focus on specific region of image
`xmax_crop, xmin_crop, ymax_crop, ymin_crop`	(optional) crop min/max x and y bounds
`max_intensity`	(optional) value to treat as maximum intensity in color scale
`asRGB`	(optional) [boolean] force RGB plotting if not automatically detected
`stretch`	character. Option to stretch the values to increase contrast: "lin" linear or "hist" (histogram)