NeuriteBlast: Produce similarity score for neuron morphologies

In nat.nblast: NeuroAnatomy Toolbox ('nat') Extension for Assessing Neuron Similarity and Clustering

Produce similarity score for neuron morphologies

Description

A low-level entry point to the NBLAST algorithm that compares the morphology of a neuron with those of a list of other neurons. For most use cases, one would probably wish to use nblast instead.

Usage

NeuriteBlast(
  query,
  target,
  targetBinds = NULL,
  normalised = FALSE,
  OmitFailures = NA,
  simplify = TRUE,
  ...
)

Arguments

query	either a single query neuron or a neuronlist
target	a neuronlist to compare neuron against.
targetBinds	numeric indices or names with which to subset target.
normalised	whether to divide scores by the self-match score of the query
OmitFailures	Whether to omit neurons for which FUN gives an error. The default value (NA) will result in nblast stopping with an error message the moment there is an error. For other values, see details.
simplify	whether to simplify the scores from a list to a vector. TRUE by default. The only time you might want to set this false is if you are collecting something other than simple scores from the search function. See simplify2array for further details.
...	extra arguments to pass to the distance function.

Details

For detailed description of the OmitFailures argument, see the details section of nblast.

Value

Named list of similarity scores.

See Also

WeightedNNBasedLinesetMatching

nat.nblast documentation built on July 9, 2023, 6:12 p.m.