neuprint_assign_connectors: Assign synapses to a neuronal tree

In alexanderbates/neuprintr: R client utilities for interacting with the neuPrint connectome analysis service

Description

Fetch the synapses associated with a bodyid and assign them to the nearest point in the skeleton. For this to work, the skeletons must be in the same brainspace as the synaptic data being pulled from neuprint. I.e. do not transform them to another brainspace, until after this step.

For some datasets, somata positions have been mapped to pixels within a soma volume in the image data. If your bodyids contain such an annotated pixel, you can retrieve its position.

Usage

neuprint_assign_connectors(x, bodyids = NULL, dataset = NULL,
  conn = NULL, ...)

neuprint_locate_soma(bodyids, dataset = NULL, all_segments = TRUE,
  conn = NULL, ...)

Arguments

x	either an object of class neuron, or neuronlist
bodyids	the body IDs for neurons/segments (bodies) you wish to query
dataset	optional, a dataset you want to query. If NULL, the default specified by your R environ file is used. See neuprint_login for details.
conn	optional, a neuprintr connection object, which also specifies the neuPrint server see ?neuprint_login. If NULL, your defaults set in your R.profile or R.environ are used.
...	methods passed to neuprint_login
all_segments	if TRUE, all bodies are considered, if FALSE, only 'Neurons', i.e. bodies with a status roughly traced status.

Value

a neuron/neuronlist object as dictated used by the nat and rcatmaid packages

a data frame of X,Y,Z coordinates, a row for each bodyid supplied

See Also

neuprint_fetch_custom, neuprint_get_synapses, neuprint_read_neurons

neuprint_fetch_custom, neuprint_get_synapses, neuprint_read_neurons

alexanderbates/neuprintr documentation built on May 28, 2019, 6:11 p.m.