AllenInstitute / AllenInstitute/ConnectsCommonConnectivity
"Probed" flag for directed connections
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Description
Problem: in CellCellConnectivityLong an absent edge row is ambiguous. In a dense EM connectome it means "probed, zero synapses"; in pairwise recordings it means "never tested".
Decide: per-edge probed flag vs probed-ness implied by measurement context (dense vs sparse); per-modality directionality (rabies retro/anterograde probes one direction by design), flag per directed edge or per-dataset declaration; which "probed" assumption fills unwritten cells in long→matrix conversion (0 vs not-probed).
Derive-on-read vs persist.
Auto-population: every measured row implies probed=true
Related: connectome_id, QC flags.
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Research direction
Start by tracing the CellCellConnectivityLong model and the long→matrix conversion entry point. Review how dense and pairwise measurements represent absent edges, then define the completed behavior for directionality, unwritten cells, auto-population, and whether probed status is derived or persisted.
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Assessment
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- data
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Active
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100