Notebooks

Notebooks#

Two results-viewer notebooks ship in notebook/. Both consume .camap directories produced by camap analysis and need Jupyter Lab for the interactive widgets:

cd notebook && jupyter lab --no-browser

view_results_arena.ipynb — 2D arena viewer#

Loads one or more arena .camap directories and gives you:

  • Cross-session summary table: place-cell counts, significance, and stability fractions across loaded bundles.

  • Behavior preview: trajectory density and speed distribution per session.

  • Trajectory + rate map gallery: side-by-side trajectory-with-events and rate-map panels for selected units.

  • Speed + place cell traces: animal speed over time with the top-SI place cell traces overlaid.

  • Interactive unit browser: scroll through units, see the rate map, place field contour, SI shuffle null, stability splits, and trace view.

Edit BUNDLE_PATHS at the top to point at your bundle(s). For a single session, leave one entry; for cross-session comparison, list multiple.

view_results_maze.ipynb — 1D maze viewer#

Same shape as the arena viewer but tailored to the 1D pipeline. Adds:

  • Per-unit shuffle browser: 1D rate map with the per-bin shuffle null overlaid.

  • Cell event overlay: events painted on the maze graph by zone, useful for spotting arm-specific tuning.

  • Zone occupancy: arm/room occupancy bar chart.

  • Cross-session occupancy (mean ± SD across bundles): used to verify behavior consistency before pooling place-cell statistics.

Same BUNDLE_PATHS convention as the arena viewer.