Plot a giotto image object#
Last Updated: Jan 14, 2025
Description#
Display a giotto image in the viewer panel. Image object to plot can be
specified by providing the giotto object containing the image
(gobject
), the image object name (image_name
), and the image
object type (image_type
). Alternatively, image objects can be
directly plotted through their respective associated params.
Usage#
plotGiottoImage(
gobject = NULL,
image_name = NULL,
image_type = NULL,
giottoImage = NULL,
giottoLargeImage = NULL,
largeImage_crop_params_list = NULL,
largeImage_max_intensity = NULL,
...
)
Arguments#
|
gobject containing giotto image object |
|
name of giotto image object |
|
type of giotto image object to plot |
|
giottoImage object to plot directly |
|
giottoLargeImage object to plot directly |
|
(optional) named list of params for focusing on a specified region of a giottoLargeImage. |
|
(optional) assign override value to treat as maximum intensity in color scale when plotting giottoLargeImage |
|
additional params to pass to image object specific plotting functions |
largeImage-specific additional params#
largeImage_crop_params_list
accepts a named list of the following
possible params to define a region of interest (ROI) to plot through
either a terra extent object OR x and y min and max bounds given as
numerics:
crop_extent
– terra extent object to define crop ROIxmax_crop
– x max of ROIxmin_crop
– x min of ROIymax_crop
– y max of ROIymin_crop
– y min of ROI
largeImage_max_intensity
accepts a numeric value to set the max
value in the plotting color scale. Can be used in case there are high
outlier intensity values in the image and a preview with alternative
color scaling is desired.
See Also#
Other basic image functions: addGiottoImage()
,
reconnectGiottoImage()
, updateGiottoImage()