updateGiottoImageMG#

Date

2022-10-06

https://github.com/drieslab/Giotto/tree/suite/R/images.R#L947

Description#

Updates the boundaries of a giotto image object attached to a giotto object if both gobject and image_name params are given. Alternatively can directly accept and return as image

Usage#

updateGiottoImageMG(
  gobject = NULL,
  image_name = NULL,
  giottoImage = NULL,
  xmax_adj = 0,
  xmin_adj = 0,
  ymax_adj = 0,
  ymin_adj = 0,
  x_shift = 0,
  y_shift = 0,
  scale_factor = NULL,
  scale_x = 1,
  scale_y = 1,
  order = c("first_adj", "first_scale"),
  xmin_set = NULL,
  xmax_set = NULL,
  ymin_set = NULL,
  ymax_set = NULL,
  return_gobject = TRUE,
  verbose = TRUE
)

Arguments#

Argument

Description

gobject

giotto object containing giotto image object

image_name

name of giotto image object

giottoImage

image object to directly update

xmax_adj, x min_adj, ymax_adj, ymin_adj

adjust image boundaries by increasing maximum and decreasing minimum bounds respectively of xy bounds

x_shift, y_shift

shift entire image along xy axes

scale_factor

set scale_x and scale_y params at the same time

scale_x, scale_y

independently scale x or y axis image mapping from coordinate origin

order

order of operations between fine adjustments (adjustment and shift parameters) and scaling

xmin_set

set image xmin boundary. Applied before adjustments

xmax_set

set image xmax boundary. Applied before adjustments

ymin_set

set image ymin boundary. Applied before adjustments

ymax_set

set image ymax boundary. Applied before adjustments

return_gobject

return a giotto object if TRUE , a giotto image object if FALSE

verbose

be verbose

Value#

a giotto object or an updated giotto image object if return_gobject = FALSe