find.neuron: Find neurons within a 3D selection box (usually drawn in rgl...

In nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data

Find neurons within a 3D selection box (usually drawn in rgl window)

Description

Find neurons within a 3D selection box (usually drawn in rgl window)

Usage

find.neuron(
  sel3dfun = select3d(),
  indices = names(db),
  db = getOption("nat.default.neuronlist"),
  threshold = 0,
  invert = FALSE,
  rval = c("names", "data.frame", "neuronlist")
)

Arguments

sel3dfun	A select3d style function to indicate if points are within region
indices	Names of neurons to search (defaults to all neurons in list)
db	neuronlist to search. Can also be a character vector naming the neuronlist. Defaults to options('nat.default.neuronlist').
threshold	More than this many points must be present in region
invert	Whether to return neurons outside the selection box (default FALSE)
rval	What to return (character vector, default='names')

Details

Uses subset.neuronlist, so can work on dotprops or neuron lists.

Value

Character vector of names of selected neurons, neuronlist, or data.frame of attached metadata according to the value of rval.

See Also

select3d, find.soma, subset.neuronlist

Examples

## Not run: 
plot3d(kcs20)
# draw a 3D selection e.g. around tip of vertical lobe when ready
find.neuron(db=kcs20)
# would return 9 neurons
# make a standalone selection function
vertical_lobe=select3d()
find.neuron(vertical_lobe, db=kcs20)
# use base::Negate function to invert the selection function 
# i.e. choose neurons that do not overlap the selection region
find.neuron(Negate(vertical_lobe), db=kcs20)

## End(Not run)

nat documentation built on May 29, 2024, 10:36 a.m.