fafbseg_transfer: Transfer information between v14 and v14-seg neurons

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

Transfer information between v14 and v14-seg neurons

Description

Functions to enable the mapping of connectors and tags between cognate FAFB v14 and v14-seg neurons, to help enable neuronal reconstruction using the partial auto-segmentation in v14-seg space

Usage

fafbseg_transfer_tags(
  new.neuron,
  old.neuron,
  offset = FALSE,
  search.range.nm = 1000,
  pid = 1,
  conn = NULL,
  pid2 = 1,
  conn2 = fafb_seg_conn(),
  ...
)

fafbseg_transfer_connectors(
  new.neuron,
  old.neuron,
  offset = FALSE,
  search.range.nm = 1000,
  links = TRUE,
  pid = 1,
  conn = NULL,
  pid2 = 1,
  conn2 = fafb_seg_conn(),
  ...
)

Arguments

new.neuron	a neuron object, or the skeleton ID of a neuron in v14 space
old.neuron	a neuron object, or the skeleton ID of a neuron in v14-seg space
offset	whether or not to expect a displacement in space between the new and old neurons. If so, search.range.nm is used to find the nearest nodes to which to assign tags/connectors, within the radius it specifies
search.range.nm	the maximum distance between points in the v14 and v14-seg skeleton, that is acceptable for the transfer ot tag/connector information. Not set to 0 be default to accept small variations in node position that might occur between the two tracing environments, due to tracer edit.s
pid	project id for conn. Defaults to 1
conn	CATMAID connection object, see ?catmaid::catmaid_login for details
pid2	project id for conn2. Defaults to 1
conn2	CATMAID connection object, see ?catmaid::catmaid_login for details
...	methods passed to catmaid::catmaid_set_labels
links	whether or not to link transferred connectors to post-pre synaptic sites on the neuron identified with the new.neuron argument

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