multi_dittoDimPlot: Generates dittoDimPlots for multiple features.

In dtm2451/dittoSeq: User Friendly Single-Cell and Bulk RNA Sequencing Visualization

Generates dittoDimPlots for multiple features.

Description

Generates dittoDimPlots for multiple features.

Usage

multi_dittoDimPlot(
  object,
  vars,
  ncol = NULL,
  nrow = NULL,
  axes.labels.show = FALSE,
  list.out = FALSE,
  OUT.List = NULL,
  ...,
  xlab = NA,
  ylab = NA,
  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 vars ('var' in regular dittoDimPlot) from which to generate the separate plots.
ncol, nrow	Integer or NULL. How many columns or rows the plots should be arranged into.
axes.labels.show	Logical. Whether axis labels should be shown. Subordinate to xlab and ylab.
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, ylab, data.out, do.hover, legend.show	other parameters passed to dittoDimPlot.

Details

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

By default, these dittoDimPlots 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 dittoDimPlot can be adjusted here, but the only input that will change between plots is var.

Value

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

Slight tweaks to dittoDimPlot defaults

• axes labels are not shown by default to save space (control with axes.labels.show or xlab and ylab)

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

Author(s)

Daniel Bunis

See Also

multi_dittoDimPlotVaryCells for an alternate dittoDimPlot multi-plotter where the cells/samples are varied between plots.

dittoDimPlot for the base dittoDimPlot plotting function and details on all accepted inputs.

Examples

example(importDittoBulk, echo = FALSE)

multi_dittoDimPlot(myRNA, c("gene1", "gene2", "clustering"))

# Control grid shape with ncol / nrow
multi_dittoDimPlot(myRNA, c("gene1", "gene2", "clustering"),
    nrow = 1)
    
# Output as list instead
multi_dittoDimPlot(myRNA, c("gene1", "gene2", "clustering"),
    list.out = TRUE)

dtm2451/dittoSeq documentation built on May 5, 2024, 11:19 a.m.