plotSpatialGeneExpr: Plot normalized gene expression data (logCPM) in spatial...

In SpatialDDLS: Deconvolution of Spatial Transcriptomics Data Based on Neural Networks

Plot normalized gene expression data (logCPM) in spatial coordinates

Description

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

SpatialDDLS documentation built on Oct. 31, 2024, 5:07 p.m.