943 (Jan 2024)

Data Release v943 (January 22, 2024) is the first quarterly release of 2024.

This version ADDS the following tables

It includes all other tables as of v795, with the following exceptions (removed tables still available in version 795):

A flat segmentation of the meshes at version 943 is available at: precomputed://gs://iarpa_microns/minnie/minnie65/seg_m943

Functional properties of coregistered cells

Table name: functional_properties_v3_bcm

A summary of the functional properties for each of the coregistered neurons (as of coregistration_manual_v3). For details, see [@ding_functional_2023]

The key columns are:

Fuctional properties of coregistered neurons
Column Description
target_id Soma ID for the cell
pt_position  pt_supervoxel_id  pt_root_id Bound spatial point columns associated with the centroid of the nucleus
session The session index from functional imaging
scan_idx The scan index from functional imaging
unit_id The functional unit index from imaging. Only unique within scan and session
pref_ori preferred orientation in radians (0 - pi), horizontal bar moving upward is 0 and orientation increases clockwise, extracted from model responses to oriented noise stimuli
pref_dir preferred direction in radians (0 - 2pi), horizontal bar moving upward is 0 and orientation increases clockwise, extracted from model responses to oriented noise stimuli
gOSI global orientation selectivity index
gDSI global direction selectivity index
cc_abs prediction performance of the model, higher is better
Tip

This is a reference table on nucleus_detection_v0, and can be indexed by the same nucleus id.

Warning

This table includes duplicate entries for the same ‘pt_root_id’ and nucleus id if the coregistered cell has multiple unit recordings

# Standard query
client.materialize.query_table('functional_properties_v3_bcm')

# Content-aware query
client.materialize.tables.functional_properties_v3_bcm(id=example_nucleus_id).query()

For more on how to interpret the table, see Annotation Tables.

Manual Coregistration

Table name: coregistration_manual_v4

A table of EM nucleus centroids manually matched to Baylor functional units. A unique functional unit is identified by its session, scan_idx and unit_id. An EM nucleus centroid may have matched to more than one functional unit if it was scanned on more than one imaging field.

The key columns are:

Coregistration table
Column Description
id Soma ID for the cell
pt_position  pt_supervoxel_id  pt_root_id Bound spatial point columns associated with the centroid of the cell nucleus
session The session index from functional imaging
scan_idx The scan index from functional imaging
unit_id The functional unit index from imaging. Only unique within scan and session
field The field index from functional imaging
residual The residual distance between the functional and the assigned structural points after transformation, in microns
score A separation score, measuring the difference between the residual distance to the assigned neuron and the distance to the nearest non-assigned neuron, in microns. This can be negative if the non-assigned neuron is closer than the assigned neuron. Larger values indicate fewer nearby neurons that could be confused with the assigned neuron.
Tip

This is a reference table on nucleus_detection_v0, and can be indexed by the same nucleus id.

Warning

This table includes duplicate entries for the same ‘pt_root_id’ and nucleus id if the coregistered cell has multiple unit recordings

# Standard query
client.materialize.query_table('coregistration_manual_v4')

# Content-aware query
client.materialize.tables.coregistration_manual_v4(id=example_nucleus_id).query()

This table coregistration_manual_v4 supercedes previous iterations of this table:

  • coregistration_manual_v3
  • coregistration_manual

For more on how to interpret the table, see Annotation Tables.

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