Class representing an OME-TIFF file in a Vitessce dataset.
Super class
vitessceR::AbstractWrapper
-> OmeTiffWrapper
Public fields
img_path
A local filepath to an OME-TIFF file.
img_url
A remote URL of an OME-TIFF file.
name
The display name for this OME-TIFF within Vitessce.
transformation_matrix
A column-major ordered matrix for transforming this image (see http://www.opengl-tutorial.org/beginners-tutorials/tutorial-3-matrices/#homogeneous-coordinates for more information).
is_bitmask
Whether or not this image is a bitmask.
is_remote
Whether or not this image is remote.
Methods
Inherited methods
vitessceR::AbstractWrapper$auto_view_config()
vitessceR::AbstractWrapper$get_file_defs()
vitessceR::AbstractWrapper$get_local_dir_route()
vitessceR::AbstractWrapper$get_local_dir_url()
vitessceR::AbstractWrapper$get_local_file_route()
vitessceR::AbstractWrapper$get_local_file_url()
vitessceR::AbstractWrapper$get_out_dir()
vitessceR::AbstractWrapper$get_out_dir_route()
vitessceR::AbstractWrapper$get_route_str()
vitessceR::AbstractWrapper$get_routes()
vitessceR::AbstractWrapper$get_url()
vitessceR::AbstractWrapper$get_url_simple()
Method new()
Create a wrapper around multiple image objects.
Usage
OmeTiffWrapper$new(
img_path = NA,
img_url = NA,
name = "",
transformation_matrix = NA,
is_bitmask = FALSE,
...
)
Arguments
img_path
A local filepath to an OME-TIFF file.
img_url
A remote URL of an OME-TIFF file.
name
The display name for this OME-TIFF within Vitessce.
transformation_matrix
A column-major ordered matrix for transforming this image (see http://www.opengl-tutorial.org/beginners-tutorials/tutorial-3-matrices/#homogeneous-coordinates for more information).
is_bitmask
Whether or not this image is a bitmask.
...
Parameters inherited from
AbstractWrapper
.use_physical_size_scaling
Whether or not to scale the image based on the physical size metadata stored in the file.
Method make_raster_routes()
Create a list representing the server routes.
Method make_image_def()
Create an object representing a single image in a raster.json list of images.
Method make_raster_file_def_creator()
Make the file definition creator function for the raster data type.