catmaid_upload_neurons: Upload neuron(s) to CATMAID

In alexanderbates/catnat: Analyse neuronal morphology and connectivity (extends catmaid and nat)

Upload neuron(s) to CATMAID

Description

Uploads neurons to CATMAID, names them and annotates them. Please use with caution, as you could be heavily adding to a live tracing environment.

Usage

catmaid_upload_neurons(
  swc = NULL,
  name = "neuron SWC upload",
  annotations = NULL,
  include.tags = TRUE,
  include.connectors = TRUE,
  return.new.skids = FALSE,
  pid = 1,
  conn = NULL,
  max.upload = 10,
  ...
)

Arguments

swc	a neuron or neuronlist object, or (a) local file path(s) to your saved .swc file(s).
name	whatever you want to name your uploaded neurons. If a single character, then it will be added to all uploaded neurons. Else, can be a character vector the same length as swc.
annotations	a character vector of annotations, to be added to all of the uploaded neurons
include.tags	whether of not, if swc is a CATMAID neuron/neuronlist, to transfer its tags to its newly uploaded cognate
include.connectors	whether of not, if swc is a CATMAID neuron/neuronlist, to transfer its connectors to its newly uploaded cognate
return.new.skids	if TRUE, the new skids created in the CATMAID instance specified by conn, are returned
pid	project id. Defaults to 1
conn	CATMAID connection object, see ?catmaid::catmaid_login for details
max.upload	the maximum number of files that the function will allow you to upload at once
...	methods passed to catmaid::catmaid_fetch

alexanderbates/catnat documentation built on Sept. 5, 2023, 4:51 a.m.