CAVE Annotation Tables

CAVE Annotation tables are associated with specific datastacks, There are some commonalities, but the table names can differ. See the overview of relevant tables below, and visit the dataset specific pages for more details and access examples.

Important

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MICrONS

Table Name	Number of Annotations	Description
synapses_pni_2	337,312,429	The locations of synapses and the segment ids of the pre and post-synaptic automated synapse detection
synapse_target_predictions_ssa	204,331,842	Spine/shaft/soma predictions on synapses
nucleus_detection_v0	144,120	The locations of nuclei detected via a fully automated method
nucleus_alternative_points	8,388	A reference annotation table marking alternative segment_id lookup locations for a subset of nuclei in nucleus_detection_v0 that is more accurate than the centroid location listed there
coregistration_manual_v4	19,181	A table indicating the association between individual units in the functional imaging data and nuclei in the structural data, derived from human powered matching. Includes residual and separation scores to help assess confidence
coregistration_auto_phase3_fwd_apl_vess_combined_v2	83,046	A table indicating the association between individual units in the functional imaging data and nuclei in the structural data, derived from the automated procedure. Includes residuals and separation scores to help assess confidence
proofreading_status_and_strategy	2182	A table indicating which neurons have been proofread on their axons or dendrites
aibs_column_nonneuronal_ref	542	Cell type reference annotations from a human expert of non-neuronal cells located amongst the Minnie V1 Column
allen_v1_column_types_slanted_ref	1,357	Neuron cell type reference annotations from human experts of neuronal cells located amongst the Minnie V1 Column
aibs_metamodel_mtypes_v661_v2	72,158	Reference annotations indicating the output of a model predicting cell types across the dataset based on the labels from allen_column_mtypes_v1.1
aibs_metamodel_celltypes_v661	94,014	Reference annotations indicating the output of a model predicting cell classes based on the labels from allen_v1_column_types_slanted_ref and aibs_column_nonneuronal_ref
baylor_log_reg_cell_type_coarse_v1	55,063	Reference annotations indicated the output of a logistic regression model predicting whether the nucleus is part of an excitatory or inhibitory cell
baylor_gnn_cell_type_fine_model_v2	49,051	Reference annotations indicated the output of a graph neural network model predicting the cell type based on the human labels in allen_v1_column_types_slanted_ref
vortex_astrocyte_proofreading_status	126	This table reports the status of a manually selected subset of astrocytes within the VISP column. Astrocyte seelection and proofreading performed as part of VORTEX.
vortex_thalamic_proofreading_status	60	This table reports the status of a manually selected subset of putative thalamocortical axons
vortex_peptidergic_proofreading_status	20	This table reports the status of a manually selected subset of long-range putative neuromodulatory axons. Distinguished by boutons with large secretory vesicles

V1DD

Table Name	Number of Annotations	Description
synapses_v1dd	639,326,124	The locations of synapses and the segment ids of the pre and post-synaptic automated synapse detection
synapse_target_predictions_ssa	165,533,529	Spine/shaft/soma predictions on synapses
nucleus_detection_v0	207,455	The locations of nuclei detected via a fully automated method
nucleus_alternative_lookup	207,455	A view that looks up nucleus_aternative_points and merges to nucleus_deteciton_v0
neurons_soma_model	88,030	A subset of nucleus detections predicted be neurons from a model trained on soma and nucleus features.
functional_coregistration_manual_2	571	A table indicating the association between individual units in the functional imaging data and nuclei in the structural data, derived from human powered matching.
proofreading_status_and_strategy	3335	A table indicating which neurons have been proofread on their axons or dendrites
cell_type_multifeature_v1	48,077	Reference annotations indicating the output of a model predicting cell types across the dataset with broad cell types
cell_type_multifeature_v1_fine	47,965	Cell types with fine categorization (perhaps too fine!) from using soma, nucleus, dendrite, and spine features. Excitatory neurons are labeled by projection category (IT, ET, NP, CT, and SP for subplate). Inhibitory neurons follow labels based on targeting such as ITC (inhibitory targeting), STC (sparsely targeting), PTC (perisomatic targeting), and DTC (dendrite targeting),
thalamic_proofreading	99	Table of putative thalamocortical axons selected for proofreading. Get proofreading status from proofreading_status_and_strategy