addImageOmeTiff: Add image to SpatialOverlay from OME-TIFF

In Nanostring-Biostats/SpatialOmicsOverlay: Spatial Overlay for Omic Data from Nanostring GeoMx Data

Add image to SpatialOverlay from OME-TIFF

Description

Add image to SpatialOverlay from OME-TIFF

Usage

addImageOmeTiff(overlay, ometiff = NULL, res = NULL, ...)

Arguments

overlay	SpatialOverlay object
ometiff	File path to OME-TIFF. NULL indicates pull info from overlay
res	resolution layer, 1 = largest & higher values = smaller. The images increase in resolution and memory. The largest image your environment can hold is recommended. NULL indicates pull info from overlay
...	Extra variables

Value

SpatialOverlay object with image

Examples

muBrain <- readRDS(unzip(system.file("extdata", "muBrainSubset_SpatialOverlay.zip", 
                                    package = "SpatialOmicsOverlay")))

image <- downloadMouseBrainImage()

muBrain <- addImageOmeTiff(overlay = muBrain, 
                           ometiff = image, res = 8)
showImage(muBrain)

Nanostring-Biostats/SpatialOmicsOverlay documentation built on April 20, 2024, 5:36 a.m.