pairwiseVln: pairwiseVln
In fungenomics/cytobox: A toolbox for analyzing single cell RNA-seq data

Description Usage Arguments Value Author(s) Examples

View source: R/comparisons_with_markers.R

Make a grid of violin plots with the mean expression of each cluster, for markers dataset 1 is the sample whose expression values will be plot, and dataset 2 is the sample whose cluster markers are used.

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pairwiseVln(seurat1, markers, seurat2,
  sample_names = c(seurat1@project.name, seurat2@project.name),
  marker_col = "gene")

`seurat1`	Seurat object for which to plot expression
`markers`	Data frame as returned by Seurat::FindAllMarkers()
`seurat2`	Seurat object from which cluster markers (`markers`) were defined
`sample_names`	(Optional) Character vector giving the names or ID of the two samples, used for axis labels, etc. Default: c(seurat1@project.name, seurat2@project.name)
`marker_col`	String specifying the column in the `markers` data frames which specifies the cluster. By default, Seurat calls this "gene" (the default here); in objects produced by the lab's pipeline, it may be called "external_gene_name".