plot_bubble_for_genes_per_custom_group_of_cells: Plot bubble-plot for gene expression per custom group of...

View source: R/SingleCellPlots.R

plot_bubble_for_genes_per_custom_group_of_cellsR Documentation

Plot bubble-plot for gene expression per custom group of cells

Description

Plot bubble-plot for gene expression per custom group of cells

Usage

plot_bubble_for_genes_per_custom_group_of_cells(
  object,
  custom_group_of_cells = list(),
  gene_list = c(),
  point.color1 = "orange",
  point.color2 = "firebrick",
  buble.scale = 6,
  gene.font.size = 12,
  axist.x.font.size = 12,
  font.size.in.bubble = 2,
  show.percent = FALSE,
  log = T,
  IsApplyClustering = TRUE,
  IsClusterByRow = TRUE,
  clustering_method = "complete",
  IsClusterByColumn = TRUE,
  IsCustomOrder = FALSE,
  IsCustomOrderByRow = FALSE,
  IsCustomOrderByColumn = FALSE,
  row.custom.order = "",
  column.custom.order = ""
)

Arguments

object

The SingCellaR object.

custom_group_of_cells

The list of custome group of cells.

gene_list

The vector of gene names.

point.color1

The color for low expression level. Default orange

point.color2

The color for high expression level. Default firebrick

buble.scale

The scale size of the bubble. Default 6

gene.font.size

The font size of gene name. Default 12

axist.x.font.size

The label on the x-axis font size. Default 12

font.size.in.bubble

The font size inside the bubble. Default 2

show.percent

is logical. If TRUE, the percentage will be displayed.

log

is logical. If TRUE, the log expression will be applied.

IsApplyClustering

is logical. If TRUE, the bubble plot will be clustered by using HCL.

IsClusterByRow

is logical. If TRUE, clustering by row.

clustering_method

The clustering method. Default 'complete'

IsClusterByColumn

is logical. If TRUE, clustering by column.

IsCustomOrder

is logical, If TRUE, the input custom order of row and column will be used.

IsCustomOrderByRow

is logical, If TRUE, row will be ordered by the custom input.

IsCustomOrderByColumn

is logical, If TRUE, column will be ordered by the custom input.

row.custom.order

is the vector of custom row names.

column.custom.order

is the vector of custom column names.


supatt-lab/SingCellaR documentation built on Aug. 24, 2023, 5:49 p.m.