CellType_genes_jitter: Plot gene expression for all CellTypes as jitter plots
In jacobheng/cellwrangler: Supplemental toolkit for single-cell RNAseq analysis

Description Usage Arguments Value Examples

CellType_genes_jitter is a wrapper function around monocle::plot_genes_jitter() that plots gene expression as jitter plots facet_wrapped by CellType.

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CellType_genes_jitter(gene_to_plot, cds, cell_size = 0.75, nrow = NULL,
  ncol = 2, color = "genotype", group = "genotype", plot_trend = F,
  relative_expr = F, color_scale = c("Black", "Red"))

`gene_to_plot`	official gene symbol of a gene to plot e.g. "Actb"
`cds`	a CellDataSet object e.g. used in the monocle package
`cell_size`	the size (in points) of each cell used in the plot.
`nrow`	the number of rows used when laying out the panels for each gene's expression.
`ncol`	the number of columns used when laying out the panels for each gene's expression.
`color`	the cell attribute (e.g. the column of pData(cds)) to be used to color each cell.
`group`	the cell attribute (e.g. the column of pData(cds)) to group cells by on the horizontal axis.
`plot_trend`	whether to plot a trendline tracking the average expression across the horizontal axis.
`relative_expr`	Whether to transform expression into relative values.
`color_scale`	a vector of colors to color barplots and error bars with.