plotNhoodGraph {miloR} | R Documentation

## Plot graph of neighbourhood

### Description

Visualize graph of neighbourhoods

### Usage

    plotNhoodGraph(
      x,
      layout = "UMAP",
      colour_by = NA,
      subset.nhoods = NULL,
      size_range = c(0.5, 3),
      node_stroke = 0.3,
      ...
    )

### Arguments

`x` | A `Milo` object
`layout` | this can be (a) a character indicating the name of the `reducedDim` slot in the `Milo` object to use for layout (default: 'UMAP') (b) an igraph layout object
`colour_by` | this can be a data.frame of milo results or a character corresponding to a column in colData
`subset.nhoods` | A logical, integer or character vector indicating a subset of nhoods to show in plot (default: NULL, no subsetting)
`size_range` | a numeric vector indicating the range of node sizes to use for plotting (to avoid overplotting in the graph)
`node_stroke` | a numeric indicating the desired thickness of the border around each node
`...` | arguments to pass to `ggraph`

### Value

a `ggplot-class` object

### Author(s)

Emma Dann

### Examples

    NULL

[Package miloR version 1.2.0 Index]