scatterPlot {CIDER}R Documentation

Scatterplot by a selected feature

Description

Scatterplot of a Seurat object based on dimension reduction.

Usage

scatterPlot(
  seu,
  reduction,
  colour.by,
  colvec = NULL,
  title = NULL,
  sort.by.numbers = TRUE,
  viridis_option = "B"
)

Arguments

seu

Seurat S4 object after the step of 'getIDER'. Required.

reduction

Character. The dimension reduction used to plot. Common options: "pca", "tsne", "umap". The availability of dimension reduction can be checked by 'Reductions(seu)'.

colour.by

Character. One of the column names of 'seu@meta.data'. Can be either discreet or continuous variables.

colvec

A vector of Hex colour codes. If no value is given (default), a vector of 74 colours will be used.

title

Character. Title of the figure.

sort.by.numbers

Boolean. Whether to sort the groups by the number of cells.(Default: True)

viridis_option

viridis_option. (Default: B)

Value

a scatter plot


[Package CIDER version 0.99.0 Index]