featureScoreVisualization: visualize cells on the 2D space with features overlayed

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

Description

visualize cells on the 2D space with features overlayed

Usage

featureScoreVisualization(object, feature.use = NULL, feature.scores,
  method = "VscAI", colormap = "RdPu", color.direction = 1,
  nCol = NULL, xlabel = "VscAI1", ylabel = "VscAI2", show.axes = T,
  cell.size = 0.3, show.legend = T, show.legend.combined = F)

Arguments

object	scAI object
feature.use	a vector of features
feature.scores	a matrix containing the feature scores
method	dimensional reduction method, e.g., VscAI, tsne, umap
colormap	RColorbrewer palette to use
color.direction	Sets the order of colours in the scale. If 1, the default, colours are as output by RColorBrewer::brewer.pal(). If -1, the order of colours is reversed.
nCol	number of columns of the plot
xlabel	label shown on x-axis
ylabel	label shown on y-axis
show.axes	whether show the axes
cell.size	the size of points (cells)
show.legend	whether show individual legend
show.legend.combined	whether just show one legend

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