plot_vlnGrid: Make grid of violin plots

In CBMR-Single-Cell-Omics-Platform/SCOPfunctions: Single Cell Omics Platform Functions

Description

produce a n_cluster * n_feature grid of violin plots

Usage

plot_vlnGrid(
  seurat_obj,
  assay,
  slot,
  var_group,
  vec_features,
  vec_group_colors = NULL,
  f_color = colorRampPalette(brewer.pal(n = 11, name = "RdYlBu")),
  flip = T,
  do_plot = F,
  pt.size = 0,
  feature_fontface = "bold.italic",
  fontsize_axistext_x = 12,
  fontsize_axistext_y = 12,
  aspect.ratio = NULL
)

Arguments

seurat_obj	Seurat object (Seurat ^3.0)
assay	seurat_obj assay to use
slot	seurat_obj slot to use
var_group	the group variable, character
vec_features	a vector of features to plot in the violin plot
vec_group_colors	a vector of colors, named by corresponding group. Length must match number of groups. Character
f_color	if vec_group_colors is not provided, the user may instead provide a function f_color() that takes as its only argument the number of colors to generate
flip	if TRUE (default), groups are rows and features are columns, and vice-verso for FALSE
do_plot	Whether to plot, logical
pt.size	size of jitter in the violin plots. Set to 0 (default) to omit
feature_fontface	the fontface
fontsize_axistext_x	passed to ggplot2
fontsize_axistext_y	passed to ggplot2

Value

ggplot2 object

CBMR-Single-Cell-Omics-Platform/SCOPfunctions documentation built on May 29, 2021, 3:52 p.m.