Use the EBImage Image class in SFE objects — ExtImage • SpatialFeatureExperiment

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

# S4 method for class 'ExtImage'
show(object)

ExtImage(img, ext = NULL)

Arguments

object: An ExtImage object.
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.

Value

An ExtImage object.