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

convertGiottoLargeImageToMG

R Documentation

convertGiottoLargeImageToMG

Description

convert a giottoLargeImage by downsampling into a normal magick based giottoImage

Usage

convertGiottoLargeImageToMG(
  gobject = NULL,
  largeImage_name = NULL,
  giottoLargeImage = NULL,
  mg_name = NULL,
  spat_unit = NULL,
  spat_loc_name = NULL,
  crop_extent = NULL,
  xmax_crop = NULL,
  xmin_crop = NULL,
  ymax_crop = NULL,
  ymin_crop = NULL,
  resample_size = 5e+05,
  max_intensity = NULL,
  return_gobject = TRUE,
  verbose = TRUE
)

Arguments

`gobject`	gobject containing giottoLargeImage
`largeImage_name`	name of giottoLargeImage
`giottoLargeImage`	alternative input param using giottoLargeImage object instead of through `gobject` and `largeImage_name` params
`mg_name`	name to assign converted magick image based giottoImage. Defaults to name of giottoLargeImage
`spat_unit`	spatial unit
`spat_loc_name`	gobject spatial location name to map giottoImage to (optional)
`crop_extent`	extent object to focus on specific region of image
`xmax_crop`	assign crop boundary
`xmin_crop`	assign crop boundary
`ymax_crop`	assign crop boundary
`ymin_crop`	assign crop boundary
`resample_size`	maximum number of pixels to use when resampling
`max_intensity`	value to treat as maximum intensity in color scale
`return_gobject`	return as giotto object
`verbose`	be verbose