createGiottoImage: createGiottoImage

In RubD/Giotto: Spatial Single-Cell Transcriptomics Toolbox

createGiottoImage

Description

Creates a giotto image that can be added to a Giotto object and/or used to add an image to the spatial plotting functions

Usage

createGiottoImage(
  gobject = NULL,
  spatial_locs = NULL,
  mg_object,
  name = "image",
  do_manual_adj = TRUE,
  xmax_adj = NULL,
  xmin_adj = NULL,
  ymax_adj = NULL,
  ymin_adj = NULL,
  scale_factor = 1
)

Arguments

gobject	giotto object
spatial_locs	spatial locations (alternative if giobject = NULL)
mg_object	magick image object
name	name for the image
do_manual_adj	flag to use manual adj values instead of automatic alignment when given a gobject or spatlocs
xmax_adj	adjustment of the maximum x-value to align the image
xmin_adj	adjustment of the minimum x-value to align the image
ymax_adj	adjustment of the maximum y-value to align the image
ymin_adj	adjustment of the minimum y-value to align the image
scale_factor	scaling of image dimensions relative to spatial coordinates

Value

a giotto image object

RubD/Giotto documentation built on April 29, 2023, 5:52 p.m.