`addNetworkLayout`¶

addNetworkLayout

Description¶

Add a network layout for a selected nearest neighbor network

Usage¶

addNetworkLayout(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  nn_network_to_use = "sNN",
  network_name = "sNN.pca",
  layout_type = c("drl"),
  options_list = NULL,
  layout_name = "layout",
  return_gobject = TRUE
)

Arguments¶

Argument	Description
`gobject`	giotto object
`spat_unit`	spatial unit
`feat_type`	feature type
`nn_network_to_use`	kNN or sNN
`network_name`	name of NN network to be used
`layout_type`	layout algorithm to use
`options_list`	list of options for selected layout
`layout_name`	name for layout
`return_gobject`	boolean: return giotto object (default = TRUE)

Details¶

This function creates layout coordinates based on the provided kNN or sNN.: Currently only the force-directed graph layout “drl”, see ``layout_with_drl` <#layoutwithdrl>`_ , is implemented. This provides an alternative to tSNE or UMAP based visualizations.

Value¶

giotto object with updated layout for selected NN network