Read neuron skeletons via neuprint

Read neuron skeletons via neuprint

Usage

read_fish_neurons(
  ids,
  connectors = FALSE,
  units = c("nm", "raw", "microns"),
  heal.threshold = Inf,
  conn = NULL,
  ...,
  dataset = fish_default_dataset()
)

Arguments

ids

Body ids in any form compatible with fish_ids.

connectors

Whether to fetch synaptic connections for the neuron (default FALSE in contrast to neuprint_read_neurons).

units

Units of the returned neurons (default "nm").

heal.threshold

The threshold for healing disconnected skeleton fragments. The default of Inf ensures that all fragments are joined together.

conn

Optional, a neuprint_connection object. Defaults to fish_neuprint to ensure that the query targets fish2.

...

Additional arguments passed to neuprint_read_neurons.

dataset

The name of the dataset as reported in Clio (default "fish2").

Value

A neuronlist object containing one or more neurons.

See also

manc_read_neurons, and nat functions including neuron, neuronlist.

Other 3d-meshes-skeletons: fish_roi_meshes(), fish_rois(), read_fish_meshes()

Examples

# \donttest{
rgcsk3 <- read_fish_neurons(fish_ids("RGC")[1:3])
#> Warning: Clio dataset lookup failed; falling back to baked-in neuprint settings for `fish2`. Clio-backed functionality may be unavailable in this session.
#> Warning: Clio dataset lookup failed; falling back to baked-in neuprint settings for `fish2`. Clio-backed functionality may be unavailable in this session.
plot(rgcsk3, WithNodes=FALSE)

# }