plot_gene_on_map: Plots Gene Expression on Cells Coordinates

In soedinglab/merlot: MERLoT

Description

Plots the expression of a given gene on a given set of coordinates

Usage

plot_gene_on_map(GeneName, CellCoordinates, ExpressionMatrix,
  CoordLabels = c("Component 1", "Component 2", "Component 3"),
  Average = F, knn = 5, Palette = grDevices::colorRampPalette(colors
  = c("yellow", "orange", "red", "black")))

Arguments

GeneName	One of the elements in the Dataset$GeneNames object.
CellCoordinates	Matrix with 2 or 3 coordinates per cell.
ExpressionMatrix	Expression matrix
CoordLabels	Which coordinate labels to use
Average	wheter or not expression for cells will be averaged over the nearest knn neighbors. Default Average=FALSE
knn	number of neighbors over which expression for the cells will be averaged in case Average=TRUE. Default: knn=5
Palette	colors that will be used for the cells by default= Palette=colorRampPalette(colors=c("yellow", "orange", "red","black")))

soedinglab/merlot documentation built on June 28, 2020, 9:36 a.m.