plotImage: Plots an image with specified from and to cell types.

In ellispatrick/spicyR: Spatial analysis of in situ cytometry data

Plots an image with specified from and to cell types.

Description

Plots an image with specified from and to cell types.

Usage

plotImage(
  cells,
  imageToPlot,
  from,
  to,
  imageID = "imageID",
  cellType = "cellType",
  spatialCoords = c("x", "y")
)

Arguments

cells	A SummarizedExperiment object.
imageToPlot	The ID of the image to be plotted.
from	The "from" cell type.
to	The "to" cell type.
imageID	The name of the imageID column in the SummarizedExperiment object.
cellType	The name of the cellType column in the SummarizedExperiment object.
spatialCoords	The names of the spatialCoords column if using a SingleCellExperiment.

Value

A ggplot object.

Examples

data("diabetesData")
plotImage(diabetesData, "A09", from = "acinar", to = "alpha")

ellispatrick/spicyR documentation built on Dec. 20, 2024, 10:50 a.m.