multi_dittoPlot {dittoSeq} | R Documentation

## Generates dittoPlots for multiple features.

### Description

Generates dittoPlots for multiple features.

### Usage

    multi_dittoPlot(
      object,
      vars,
      group.by,
      ncol = 3,
      nrow = NULL,
      main = "var",
      ylab = NULL,
      list.out = FALSE,
      OUT.List = NULL,
      ...,
      xlab = NULL,
      data.out = FALSE,
      do.hover = FALSE,
      legend.show = FALSE
    )

### Arguments

`object` | A Seurat, SingleCellExperiment, or SummarizedExperiment object.
`vars` | c("var1","var2","var3",...). A vector of gene or metadata names from which to generate the separate plots
`group.by` | String representing the name of a metadata to use for separating the cells/samples into discrete groups.
`ncol, nrow` | Integer or NULL. How many columns or rows the plots should be arranged into.
`main, ylab` | String which sets whether / how plot titles or y-axis labels should be added to each individual plot When set to `"var"`, the `vars` names alone will be used. When set to `"make"`, the default dittoPlot behavior will be observed: For y-axis labels, gene vars will become "'var' expression". Equivalent to "var" for `main`. When set as any other string, that string will be used as the title / y-axis label for every plot. When set to `NULL`, titles / axes labels will not be added.
`list.out` | Logical. (Default = FALSE) When set to `TRUE`, a list of the individual plots, named by the `vars` being shown in each, is output instead of the combined multi-plot.
`OUT.List` | Deprecated. Use `list.out`
`..., xlab, data.out, do.hover, legend.show` | other paramters passed along to `dittoPlot`.

### Details

Given multiple 'var' parameters to `vars`, this function creates a `dittoPlot` for each one, with minor defaulting tweaks (see below).

By default, these dittoPlots are arranged into a grid. Alternatively, if `list.out` is set to `TRUE`, they are output as a list with each plot named as the `vars` being shown.

All parameters that can be adjusted in dittoPlot can be adjusted here, but the only input that will change between plots is the `var`.

### Value

A set of dittoPlots either arranged into a grid (default), or output as a list.

### Slight tweaks to dittoPlot defaults

- axes labels are not shown by default to save space (control with `xlab` and `ylab`)

- legends are also not shown to save space (control with `legend.show`)

### Author(s)

Daniel Bunis

### See Also

`dittoPlot` for the single plot version of this function and details on all accepted inputs.

`dittoDotPlot` and `dittoPlotVarsAcrossGroups` to show, in a single plot, per-group summaries of the values for multiple vars.

### Examples

    example(importDittoBulk, echo = FALSE)
    genes <- getGenes(myRNA)[1:4]

    multi_dittoPlot(myRNA,
        vars = c("gene1", "gene2", "gene3", "gene4"),
        group.by = "clustering")

    #To make it output a grid that is 2x2, to add y-axis labels
    # instead of titles, and to show legends...
    multi_dittoPlot(myRNA, c("gene1", "gene2", "gene3", "gene4"), "clustering",
        nrow = 2, ncol = 2,           #Make grid 2x2 (only one of these needed)
        main = NULL, ylab = "make",   #Add y axis labels instead of titles
        legend.show = TRUE)           #Show legends

    # Output as list instead
    multi_dittoPlot(myRNA, c("gene1", "gene2", "gene3", "gene4"), "clustering",
        list.out = TRUE)

[Package dittoSeq version 1.4.4 Index]