neuprint_common_connectivity: Get the common synaptic partners for a set of neurons

In natverse/neuprintr: R Client Utilities for Interacting with the neuPrint Connectome Analysis Service

Get the common synaptic partners for a set of neurons

Description

Get the neurons that are shared synaptic partners for a set of given bodyids, either upstream or downstream.

Usage

neuprint_common_connectivity(
  bodyids,
  statuses = NULL,
  prepost = c("PRE", "POST"),
  all_segments = FALSE,
  dataset = NULL,
  conn = NULL,
  ...
)

Arguments

bodyids	the cypher by which to make your search
statuses	if not NULL, only bodies with the given status are considered. Statuses include: Unimportant,0.5assign,Leaves,Prelim Roughly Traced, Anchor, Orphan.
prepost	whether to look for partners presynaptic or postsynaptic to the given bodyids. So when prepost="PRE" you will return inputs (upstream partners) of your starting neurons.
all_segments	if TRUE, all bodies are considered, if FALSE, only 'Neurons', i.e. bodies with a status roughly traced status.
dataset	optional, a dataset you want to query. If NULL, the default specified by your R environ file is used or, failing that the current connection, is used. See neuprint_login for details.
conn	optional, a neuprintr connection object, which also specifies the neuPrint server. If NULL, the defaults set in your .Rprofile or .Renviron are used. See neuprint_login for details.
...	methods passed to neuprint_login

Value

a n x m matrix where n correspond to the neurons that all connect to m bodyids

See Also

neuprint_simple_connectivity, neuprint_get_adjacency_matrix

Examples

da2s=neuprint_search('.*DA2.*')
da2conn = neuprint_common_connectivity(da2s$bodyid[1:2], prepost='PRE')
plot(t(da2conn))
head(cbind(t(da2conn), sum=colSums(da2conn)))

natverse/neuprintr documentation built on Sept. 15, 2023, 6:59 a.m.