Package index • neuprintr

Basic interaction with neuPrint server Connect to a server, check what datasets are available (or set the default dataset) and get details of the available API calls.
`neuprint_connection()` `neuprint_login()`	Connect to/authenticate with a neuPrint server and its Neo4j database, returning a neuPrint connection object
`neuprint_datasets()` `neuprint_database()` `neuprint_available()` `neuprint_version()`	Find out what some information about your neuPrint server
Simple queries Find neurons by name/type or by their ROI innervation
`neuprint_search()` `neuprint_ids()`	Search for body IDs based on a given name
`neuprint_find_neurons()` `neuprint_bodies_in_ROI()`	Find bodies within a given ROI
Fetch neuron data and metadata Read the name, summary metdata and skeleton, synapse data for neurons
`neuprint_get_neuron_names()`	Get the name of a neuron
`neuprint_get_meta()`	Get key metadata for body (including name, type, status, size)
`neuprint_read_neurons()` `neuprint_read_skeletons()` `neuprint_read_neurons_simple()`	Read skeleton and optional synapse information for neuPrint bodies
`neuprint_get_synapses()`	Get the locations of pre- and post synapses associated with a body.
`neuprint_connectors()`	Get the IDs and 3D locations of the pre- and post- synapses that make up a synaptic object
Connectivity between neurons
`neuprint_connection_table()`	Get the upstream and downstream connectivity of a neuron
`neuprint_simple_connectivity()`	Get a list of connected partners for a neuron
`neuprint_ROI_connectivity()`	Get connectivity between ROIs (summary or data frame of connecting neurons)
`neuprint_common_connectivity()`	Get the common synaptic partners for a set of neurons
`neuprint_get_adjacency_matrix()`	Get a matrix of connectivities between bodies
`neuprint_skeleton_connectivity_matrix()`	Get a matrix for connectivity between neuron/neuronlist objects
`neuprint_get_paths()`	Get a list of paths of length n between 2 neurons
`neuprint_get_shortest_paths()`	Get a list of the shortest paths between two neurons
`neuprint_cosine_matrix()`	Calculate a cosine similarity matrix for neuprint neurons
`neuprint_cosine_plot()`	Plot cosine clustering of neuprint/hemibrain neurons
ROI information List, visualise or summarise synpases in regions of interest.
`neuprint_ROIs()`	Get a vector of all the ROIs in a specified dataset
`neuprint_get_roiInfo()`	Get roiInfo associated with a body
`neuprint_ROI_mesh()`	Download a region of interest as a 3D mesh
`neuprint_ROI_hierarchy()`	Get the region of interest (ROI) hierarchy in a dataset
Neuron manipulation
`neuprint_assign_connectors()` `neuprint_locate_soma()`	Assign synapses to a neuronal tree
Other queries
`neuprint_dump()`	Download data from neuprint for specified bodyids / a specified ROI
Low level functions to interact with neuPrint server
`neuprint_fetch_custom()`	Use a cypher to make a custom query to the neuPrint server specifying the information you want to obtain
`neuprint_list2df()`	Parse neuprint return list to a data frame
`neuprint_get_fields()`	Get available metadata fields for Neuron nodes

Reference

Basic interaction with neuPrint server

Simple queries

Fetch neuron data and metadata

Connectivity between neurons

ROI information

Neuron manipulation

Other queries

Low level functions to interact with neuPrint server