AllenInstitute / AllenInstitute/ConnectsCommonConnectivity
Derive CellCellConnectivityLong from a synapse table
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- Dominant language
- Jupyter Notebook
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Description
Feature: when a SynapseConnectivityLong table exists, cell-cell connectivity is derivable — group by (presynaptic_cell, postsynaptic_cell) and aggregate. Provide a function that populates CellCellConnectivityLong automatically.
Decide: aggregations — total synapse count always; total synapse size when a per-synapse size column exists (via the dataset's SynapseFeatureMatrix). Each aggregation gets its own measurement_type (SynapticMeasurementType).
Depends on: #17 (connectome_id on the output); pairs with #19.
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Research direction
Start by locating the definitions and creation paths for SynapseConnectivityLong, CellCellConnectivityLong, SynapseFeatureMatrix, and SynapticMeasurementType. Trace how table data and per-synapse features are accessed, then implement aggregation by presynaptic and postsynaptic cell. Done means the output includes synapse count, optional synapse size, and separate measurement types while incorporating the connectome_id from #17.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- jupyter-notebook
- Domain
- data, databases
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Active
- Clarity
- Mostly clear
- Newbie friendliness
- 52/100