createSpatialWindow: Create Spatial Window of MSI Data

In CeMOS-Mannheim/moleculaR: Spatial Probabilistic Mapping of Metabolite Ensembles in Mass Spectrometry Imaging

Create Spatial Window of MSI Data

Description

This function creates 'spatstat.geom::owin' polygonal spatial window which represents the boundaries of the tissue under study.

Usage

createSpatialWindow(pixelCoords, isPolygon = FALSE, clean = FALSE, plot = TRUE)

Arguments

pixelCoords:	a data frame with x and y columns containing the coordinates of all pixels within a given MSI data. A 'matrix' will be coerced into a data frame.
isPolygon:	a logical, whether 'pixelCoords' represents the coordinates of a polygon or not.
clean:	logical, whether to fill holes created by missing pixels.
plot:	whether to plot.

Value

A spatial window object of type 'spatstat.geom::owin'.

CeMOS-Mannheim/moleculaR documentation built on April 14, 2025, 8:27 a.m.