neuprint_ROI_hierarchy: Get the region of interest (ROI) hierarchy in a dataset

In natverse/neuprintr: R Client Utilities for Interacting with the neuPrint Connectome Analysis Service

Get the region of interest (ROI) hierarchy in a dataset

Description

Get the region of interest (ROI) hierarchy in a dataset

Usage

neuprint_ROI_hierarchy(
  root = NULL,
  rval = c("edgelist", "graph"),
  dataset = NULL,
  conn = NULL,
  ...
)

Arguments

root	Character vector specifying a root node that defines a subgraph of the ROI hierarchy. The default (root=NULL) will return the whole hierarchy.
rval	Whether to return an edge list data.frame (the default) or an igraph object.
dataset	optional, a dataset you want to query. If NULL, the default specified by your R environ file is used or, failing that the current connection, is used. See neuprint_login for details.
conn	optional, a neuprintr connection object, which also specifies the neuPrint server. If NULL, the defaults set in your .Rprofile or .Renviron are used. See neuprint_login for details.
...	additional arguments passed to neuprint_fetch_custom

See Also

neuprint_ROIs, neuprint_get_roiInfo

Examples

g = neuprint_ROI_hierarchy(rval='graph')
igraph::plot.igraph(g, layout=igraph::layout_as_tree)

# just the Mushroom Body Nodes on right hand side
mbg=neuprint_ROI_hierarchy(root='MB(R)', rval='graph')
igraph::plot.igraph(mbg)
# find just the terminal nodes of the graph
mbterms=nat::endpoints(mbg)
mbterms

## Not run: 
# read in all the MB meshes
mbmeshes=sapply(mbterms, neuprint_ROI_mesh, simplify = FALSE)
# 3D plot in different colours
mapply(shade3d, mbmeshes, col=rainbow(length(mbmeshes)))

## End(Not run)

natverse/neuprintr documentation built on Sept. 15, 2023, 6:59 a.m.