| ---
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| language:
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| - en
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| pretty_name: FlyWire-informed fly odor-reward simulation — V4b
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| tags:
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| - neuroscience
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| - drosophila
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| - flywire
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| - mujoco
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| - simulation
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| - associative-learning
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| configs:
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| - config_name: v4b_choices
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| default: true
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| data_files:
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| - split: calibration
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| path: tables/v4b_calibration_choices.parquet
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| - split: validation
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| path: tables/v4b_validation_choices.parquet
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| - config_name: v4_failed_calibration
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| data_files:
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| - split: calibration
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| path: tables/v4_calibration_choices.parquet
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| ---
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|
|
| # FlyWire-informed odor-reward simulation: individual-behavior V4b
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|
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| **The full predeclared validation FAILED. This is synthetic simulation data,
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| not measured fly behavior or a quantitative reproduction of Kaun et al. (2011).**
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|
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| [Detailed results](results/v4b/RESULTS.md) ·
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| [Code and protocols](https://github.com/histochemichael/fly-sud-simulation)
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|
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| 
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|
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| ## Findings and limitations
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|
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| 256 independently seeded validation flies, four conditions (paired, unpaired,
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| untrained, retrieval-DAN-silenced), two delays (30 min, 24 h), 32 flies per cell:
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| 8 reciprocal replicate pairs with 2 flies per odor group.
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| Paired CPI was -0.59375 ± 0.13311 SEM early and +0.46875 ± 0.15264 late.
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| Paired-versus-unpaired exact two-sided paired sign-flip tests gave Holm-adjusted
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| p=0.03125 and p=0.09375. The late contrast failed the declared statistical gate.
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| Ten stationary nonresponders remain in denominators. No selective exclusions
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| or post-validation tuning were performed.
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|
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| Both timing points informed calibration: independent validation seeds assess
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| model repeatability, not held-out time-course prediction or biological validity.
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| Individual variation is modeled, not fitted to measured individual flies.
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| The memory transition remains too early; 7-day persistence and shock resistance
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| are not reproduced. The paper and simulation use different tests and group sizes.
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| CPI SEM is across reciprocal pairs, not a standard deviation of individual paths.
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|
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| ## Included runs
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|
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| - V4 failed calibration: 48 trials at gains 5, 20, 80, using the same 16 seed
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| profiles across gains (common random numbers). No candidate passed.
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| - V4b calibration: 32 new flies at predeclared gain 50.
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| - V4b validation: 256 new flies after freezing the selected configuration.
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|
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| Failed calibration records are preserved. Earlier V1/V2/V3 experiments are not
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| pooled into these tables. Original V1 archives remain in the GitHub release.
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|
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| ## Data layout and reuse
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|
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| Dataset Viewer exposes only explicit individual-choice tables with stable
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| individual_key = version/batch/fly_id. Full records are under raw/v4/ and raw/v4b/.
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| Each trial includes Parquet state/physics/learning histories, summary, individual
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| configuration, replay and NPZ naive/post-training/pre-test/final learning states,
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| including exact FlyWire root IDs. Configuration, seeds, software versions and
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| source snapshots are preserved alongside each run. MANIFEST.json provides
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| SHA-256 checksums for all uploaded files except the manifest itself.
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|
|
| ~~~python
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| from datasets import load_dataset
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| choices = load_dataset("Histochemichael/fly-sud-simulation", "v4b_choices")
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| from huggingface_hub import snapshot_download
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| folder = snapshot_download("Histochemichael/fly-sud-simulation", repo_type="dataset")
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| ~~~
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|
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| Physics state indices join within the same trial, not globally. Nonresponse
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| latencies are censored at the 120-second assay limit, never zero-latency choices.
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| At an absorbing collection zone physics stops; subsequent hold rows are not
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| walking. Do not invent trajectories beyond collection. Test memory states can
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| be reconstructed from initial state, elapsed time and archived update equations.
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|
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| ## Model and compute
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|
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| Real FlyWire FAFB v783 connectivity informs an 8,570-neuron olfactory/mushroom-body
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| subset. All simulated flies share that reference anatomy; individual connectomes
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| were not measured. Assumed dynamics, noise, memory kinetics and motor decoding
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| are not determined by anatomy. Dopamine is a simplified DAN-to-MBON retrieval
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| gate; this is not mechanistic DAN-to-KC plasticity or a whole-brain simulation.
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| Learning is online associative/reward-modulated, not deep learning or a complete
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| biological addiction model.
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|
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| Testing uses actual MuJoCo/NeuroMechFly physical dynamics. Conditioning is
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| stationary. Local Intel Core i7-9700F, eight CPU workers; no GPU acceleration.
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| Publishing dependencies may differ from archived experiment environments.
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|
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| ## Sources and rights
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|
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| Kaun et al. (2011), A Drosophila model for alcohol reward, Nature Neuroscience,
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| DOI:10.1038/nn.2805. [Primary source](https://pmc.ncbi.nlm.nih.gov/articles/PMC4249630/).
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| The user-supplied paper figure is retained unchanged for research comparison,
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| not a training example. See [attribution](results/v4b/PAPER_ATTRIBUTION.md).
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| Original author/publisher rights remain; no blanket license is asserted.
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| FlyWire source connectivity is attributed under its CC BY 4.0 source terms:
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| https://zenodo.org/records/10676866 . Branding and other third-party assets
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| retain their own rights. Do not infer an unrestricted license from public access.
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|
