featureVisualization: visualize cells on the 2D space with gene expression or...

In sqjin/scAI: integrative analysis of single-cell transcriptomic and epigenomic profiles

Description

visualize cells on the 2D space with gene expression or chromatian accessibility overlayed

Usage

featureVisualization(object, assay, feature.use, method = "VscAI",
  nCol = NULL, xlabel = "VscAI1", ylabel = "VscAI2",
  cell.size = 0.3, show.legend = T, show.legend.combined = F,
  show.axes = T)

Arguments

object	scAI object
assay	define an assay to show, e.g., assay = "RNA"
feature.use	a vector of features
method	dimensional reduction method, e.g., VscAI, tsne, umap
nCol	number of columns of the plot
xlabel	label shown on x-axis
ylabel	label shown on y-axis
cell.size	the size of points (cells)
show.legend	whether show individual legend
show.legend.combined	whether just show one legend
show.axes	whether show the axes

sqjin/scAI documentation built on Nov. 19, 2020, 4:04 p.m.