expandSpatialAnnotation: Expand the outline of spatial annotations

In theMILOlab/SPATA2: A Toolbox for Spatial Expression Analysis

Expand the outline of spatial annotations

Description

Expands or shrinks the outer outline of a spatial annotation.

Usage

expandSpatialAnnotation(object, id, expand, new_id = FALSE, overwrite = FALSE)

Arguments

object	An object of class SPATA2 or, in case of S4 generics, objects of classes for which a method has been defined.
id	Character value. The ID of the spatial annotation of interest.
expand	Distance measure with which to expand the border. Negative values shrink the outline.
new_id	Character value or FALSE. If character, the resulting spatial annotation is stored under a new ID.
overwrite	Logical value. Must be TRUE to allow overwriting.

Value

The updated input object, containing the added, removed or computed results.

See Also

smoothSpatialAnnotation(), shiftSpatialAnnotation(), SpatialAnnotation

Examples

library(SPATA2)
library(tidyverse)

data("example_data")

object <- loadExampleObject("UKF275T")

plotImage(object) + ggpLayerSpatAnnOutline(object, ids = "vessel1", line_color = "red")
plotSpatialAnnotations(object, "vessel1")

object <- expandSpatialAnnotation(object, id = "vessel1", expand = "50um", new_id = "vessel1_exp")

plotSpatialAnnotations(object, ids = c("vessel1", "vessel1_exp"))

theMILOlab/SPATA2 documentation built on Feb. 8, 2025, 11:41 p.m.