Plot normalized gene expression data (logCPM) in spatial coordinates — plotSpatialGeneExpr • SpatialDDLS

Color spots on the spatial coordinates according to the logCPM values of a particular gene.

Usage

plotSpatialGeneExpr(
  object,
  index.st,
  gene,
  colors = "spectral",
  size.point = 1,
  title = NULL,
  theme = NULL
)

Arguments

object: A SpatialDDLS object.
index.st: Index of the spatial transcriptomics data to be plotted. It can be either a position or a name if a named list of SpatialExperiment objects was provided.
gene: Gene to color spots by.
colors: Color scale to be used. It can be "blues" or "spectral" (the latter by default).
size.point: Size of points (0.1 by default).
title: Title of plot.
theme: ggplot2 theme.

Value

A ggplot object.

See also

interGradientsDL topGradientsCellType