Package index

Dataset setup

Point fafbseg / cave at the Aedes segmentation.

choose_aedes() with_aedes()

Choose or temporarily use the Aedes autosegmentation

register_aedes_coconat()

Register Aedes dataset for coconatfly

Metadata and id resolution

Query the FlyTable annotations and pick a materialisation.

aedes_meta() aedes_ids()

Return metadata about Aedes neurons from FlyTable

aedes_get_version()

Resolve Aedes materialisation version and timestamp

aedes_set_version()

Set default version selection for Aedes helpers

Coordinates

Convert between raw and nm, query supervoxels, mirror through the brain.

aedes_voxdims() aedes_nm2raw() aedes_raw2nm()

Handle raw and nm calibrated Aedes coordinates

aedes_xyz2id()

Find Aedes root or supervoxel (leaf) IDs for XYZ locations

aedes_mirror()

Mirror Aedes neurons or points to the opposite side of the brain

aedes_point_side()

Predict the L/R side of points in Aedes space

Reading neurons

Pull skeletons and pick annotation points.

read_aedes_neurons()

Read Aedes L2 skeletons

aedes_soma_position()

Look up the soma position for one or more Aedes neurons

aedes_soma_side()

Predict the L/R side of Aedes neurons

aedes_key_point()

Find a good "key" point on a neuron to associate with annotations

Editing the aedes_main table

Bulk add or update FlyTable rows.

aedes_add_neurons()

Add new neurons (and update existing ones) in the aedes_main flytable

Low level CAVE access

aedes_cave_client()

Low level access to Aedes CAVE annotation infrastructure

aedes_cave_query()

Query Aedes tables in the CAVE annotation system

Datasets

aedes_neuropil_mesh

Mesh of the Aedes neuropil

aedes_soma_l2_stats

Population L2-attribute model for soma identification