rayplot_single_coordinate: Plot nearest neighbor ray plots for a single coordinate

In gusef/IrisSpatialFeatures: A package to extract spatial features based on multiplex IF images

Description

Plot nearest neighbor ray plots for a single coordinate

Usage

rayplot_single_coordinate(x, from_type, to_type, samp_name = "",
  from_col = "#EE7600", to_col = "#028482", lineColor = "#666666",
  use_pixel = FALSE, microns_per_pixel = 0.496)

## S4 method for signature 'Coordinate'
rayplot_single_coordinate(x, from_type, to_type,
  samp_name = "", from_col = "#EE7600", to_col = "#028482",
  lineColor = "#666666", use_pixel = FALSE, microns_per_pixel = 0.496)

Arguments

x	An Coordinate object
from_type	Cell type from which the rays are drawn
to_type	Cell type to which the rays are drawn
samp_name	Name of the sample
from_col	Color for the 'from' cell-type (Default: '#EE7600')
to_col	Color for the 'to' cell-type (Default: '#028482')
lineColor	Color for the line (Default: '#666666')
use_pixel	Express units as pixels (Default: FALSE)
microns_per_pixel	Conversion (Default: 0.496)

Value

a plot

Examples

#loading pre-read dataset
dataset <- IrisSpatialFeatures_data
dataset <- extract_nearest_neighbor(dataset)
rayplot_single_coordinate(x = dataset@samples[[1]]@coordinates[[1]],
                          samp_name = dataset@samples[[1]]@sample_name,
                          from_type = "SOX10+ PDL1+",
                          to_type = "CD8+ PD1+")

gusef/IrisSpatialFeatures documentation built on May 6, 2019, 9:50 p.m.