R Package for use with rcatmaid and nat. catnat provides some higher level analysis function for, for example, clustering synapses within a neuron’s tree structure, clustering together neurons by synapse position in 3D space and splitting a neuron into different compartments (e.g. axon-dendrite-primary neurite) and visualising these splits and clusters. The packages remains heavily in development.
# install if (!require("devtools")) install.packages("devtools") devtools::install_github("alexanderbates/catnat") # use library(catnat) # some useful functions ?seesplit3d ?flow.centrality ?get.synapses ?cluster.by.synapses
rcatmaid is based on python code presently visible at:
by Albert Cardona and Philipp Schlegel. Released under the GPL-3 license.