GObubbleplot: GObubbleplot

In milescsmith/bubbleplot: Create bubble plot of scRNAseq expression data from Seurat

Description

Produces a Bubble Plot for the genes of a given GO term.

Usage

GObubbleplot(
  object,
  go_term,
  group_by = "ident",
  filter = NULL,
  filter_exp_pct = NULL,
  filter_exp_pct_thresh = 0,
  filter_exp_level = 0,
  x_lab_size = 9,
  y_lab_size = 9,
  x_lab_rot_angle = 45,
  cluster_x = TRUE,
  cluster_y = TRUE,
  colors_use = NULL,
  do_return = FALSE,
  ...
)

Arguments

object	Seurat object
go_term	Gene Ontology term identifier (i.e. GO:0046774)
group_by	Factor by which to group cells. (default: ident)
filter	A list of gene names to filter the GO term members against. (default: all genes in object)
filter_exp_pct	Display only genes that are expressed above this fraction of cells in at least one group. (default: NULL)
filter_exp_pct_thresh	Threshold for expression fraction. (default: 0)
filter_exp_level	Display only genes that are expressed above this level in at least one group. (default: 0)
x_lab_size	x-axis label font size. Default: 9
y_lab_size	y-axis label font size. Default: 9
x_lab_rot_angle	x-axis label rotation. Default: 45
cluster_x	Should x-axis variables be clustered? Default: TRUE
cluster_y	Should x-axis variables be clustered? Default: TRUE
colors_use	Colors to use for coloring gene expression
do_return	If TRUE, return a ggplot2 object instead of displaying chart
...	Additional options to pass to bubbleplot

Value

if isTRUE(do_return), a ggplot2 object

milescsmith/bubbleplot documentation built on Jan. 22, 2022, 3:10 p.m.