registerGiottoObjectList#
Last Updated: Jan 14, 2025
Description#
Wrapper function for registerGiottoObjectListFiji and registerGiottoObjectListRvision
Usage#
registerGiottoObjectList(
gobject_list,
spat_unit = NULL,
method = c("fiji", "rvision"),
image_unreg = "image",
image_reg_name = "image",
image_list = NULL,
save_dir = NULL,
spatloc_unreg = "raw",
spatloc_reg_name = "raw",
fiji_xml_files,
fiji_registered_images,
scale_factor = NULL,
allow_rvision_autoscale = TRUE,
verbose = TRUE
)
Arguments#
|
List of gobjects to register |
|
spatial unit |
|
Method used to align gobjects. Current options are either using FIJI register_virtual_stack_slices output or rvision |
|
Gobject image slot to use. Defaults to ‘image’ (optional) |
|
Arbitrary image slot name for registered images to occupy. Defaults to replacement of ‘image’ slot (optional) |
|
RVISION - under construction |
|
RVISION - under construction |
|
Unregistered spatial locations to align. Defaults to ‘raw’ slot (optional) |
|
Arbitrary name for registered spatial locations. Defaults to replacement of ‘raw’ slot (optional) |
|
Filepaths to FIJI registration XML outputs |
|
Registered images output by FIJI register_virtual_stack_slices |
|
Scaling to be applied to spatial coordinates |
|
Whether or not to allow rvision to automatically scale the images when performing image registration |
|
Be verbose |
Value#
List of registered giotto objects where the registered images and spatial locations