plot_tsne_metadata: tSNE Plot on metadata

In kgellatl/SignallingSingleCell: Network Analysis for single cell RNA sequencing Data (sc-RNASeq)

Description

This will plot information onto a 2d tsne plot

Usage

plot_tsne_metadata(
  input,
  title = "",
  color_by,
  facet_by = NA,
  ncol = "NA",
  size = 1.5,
  alpha = 1,
  colors = NA,
  theme = "classic",
  legend_dot_size = 1.5,
  xcol = "x",
  ycol = "y",
  text_sizes = c(20, 10, 5, 10, 5, 5),
  shuffle = F
)

Arguments

input	the input ex_sc.
title	The title
color_by	What to color points by, either "UMI_sum", or pData categorial variable, ignored if gene is provided
facet_by	What to break the plots by
ncol	How many columns if faceting
size	The size of the points
alpha	The transparency of the points
colors	What colors to utilize for categorial data. Be sure it is of the proper length!
legend_dot_size	Size of dot in legend
xcol	pData column to use for x axis
ycol	pData column to use for y axis

Details

Utilize information stored in pData to control the plot display.

Examples

plot_tsne_metadata(ex_sc_example, color_by = "UMI_sum", title = "UMI_sum across clusters", facet_by = "Cluster", ncol = 3)

kgellatl/SignallingSingleCell documentation built on Dec. 29, 2021, 4:12 p.m.