Use the EBImage Image class in SFE objects

This is a thin wrapper around the Image class in the EBImage package so it inherits from VirtualSpatialImage to be compatible with SpatialExperiment from which SFE inherits. An ext field is added to specify the spatial extent of the image in microns to facilitate geometric operations on the SFE object (including the images) and plotting with Voyager.

Usage

ExtImage(img, ext = NULL)

Arguments

img

An Image object or anything that inherits from Image such as AnnotatedImage in RBioFormats.

ext

Numeric vector with names "xmin", "xmax", "ymin", "ymax" in microns indicating the spatial extent covered by the image. If NULL, then the extent will be inferred from the metadata, from physical pixel size and the number of pixels.

object

An ExtImage object.

Value

An ExtImage object.