plot_violin: Plot Violin

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

Description

This will plot gene expression via violin plot

Usage

plot_violin(
  input,
  gene,
  color_by,
  facet_by = NULL,
  assay = NULL,
  title = NULL,
  jitter = T,
  plot_mean = T,
  number_labels = T,
  sig = 2,
  size = 1,
  ncol = 2,
  text_sizes = c(20, 10, 5, 10, 5, 5)
)

Arguments

input	The input data
gene	the gene or genes to plot
color_by	colData() column to facet plot by
facet_by	If ONE gene is being plotted it can be faceted. You cannot facet multiple genes
assay	The assay to operate on. Will default to get_def_assay(input)
title	The title
jitter	Whether or not to add jitter points to violin
plot_mean	whether or not to plot the mean value along with a secondary axis
number_labels	Add counts and fraction expression to plot
sig	number of decimals for number_labels
size	The size of the points
ncol	controls the number of columns if faceting
text_sizes	the text sizes on the plot

Details

Utilize information stored in colData to control the plot display.

Examples

plot_violin(ex_sc_example, gene = "Tnf", title = "Tnf over Time", facet_by = "Timepoint", density = TRUE)

kgellatl/SignalCell documentation built on Sept. 3, 2020, 8:45 a.m.