PlotDEGenes: PlotDEGenes

In milescsmith/DEGcompareR: Find, plot, and write differentially expressed genes within groups of a Seurat object

Description

Using a bubbleplot, plot genes that are differentially expressed between cells of a comparison group within a grouping (i.e. DEGs between different disease groups within the same cell type). The results of all intragroup comparisons are compiled together and plotted together on one bubbleplot.

Usage

PlotDEGenes(object, combo_list, group_by = "celltype",
  compare_by = "class", gene_annotation_df = NULL, split_if = NULL,
  ...)

Arguments

object	Processed Seurat scRNAseq object
combo_list	Differentially expressed gene list for combination of contrast factors from FindGroupDEGs
group_by	Group variable within which to examine the cells. Default: celltype
compare_by	Group variable to use when comparing the cells. Default: class.
gene_annotation_df	Dataframe containing
split_if	If the number of features is above this amount, facet the plot. Default: NULL
...	Extra arguments to pass to SeuratBubblePlot::bubbleplot()

Value

ggplot2 object

milescsmith/DEGcompareR documentation built on May 26, 2019, 9:33 a.m.