plot_proximities {IrisSpatialFeatures} | R Documentation

## Plot proximity analysis data

### Description

Plot proximity analysis data

### Usage

    plot_proximities(x, ...)

    ## S4 method for signature 'ImageSet'
    plot_proximities(x, label, ordering = NULL,
      normalize = TRUE, palette = NULL, celltype_order = NULL,
      xlim_fix = 13, topbar_cols = "darkgrey")

### Arguments

`x` | An IrisSpatialFeatures ImageSet object
`...` | Additional parameters.
`label` | Cell-type for which the proximit profile is plotted
`ordering` | Ordering of the samples (Default: NULL)
`normalize` | Flag, should the populations of different cell-types sum up to one in each sample? (Default: TRUE)
`palette` | Color palette, by default it uses Spectral from RColorbrewer (Default:NULL)
`celltype_order` | Ordering of the cell-type. (Default: NULL)
`xlim_fix` | Space on the right side to show the legend (Default: 13)
`topbar_cols` | Color of the barplots on top (Default: 'darkgrey'

### Value

plot proximity analysis

### Examples

    #loading pre-read dataset
    dataset <- IrisSpatialFeatures_data
    dataset <- extract_proximity(dataset,only_closest=TRUE,radii=25)
    p <- plot_proximities(dataset,"SOX10+ PDL1-",xlim_fix=3)

[Package IrisSpatialFeatures version 1.3.0 Index]