Initial commit: organized project structure for student handoff

Reorganized flat 41-file directory into structured layout with:
- scripts/ for Python analysis code with shared config.py
- notebooks/ for Jupyter analysis notebooks
- data/ split into raw/, metadata/, processed/
- docs/ with analysis summary, experimental design, and bimodal hypothesis tutorial
- tasks/ with todo checklist and lessons learned
- Comprehensive README, PLANNING.md, and .gitignore

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

docs/analysis_summary.md

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+# Analysis Summary: Distance Between Flies
+
+## Key Findings
+
+### Overall Statistics
+- Trained flies (aligned to barrier opening):
+  - Data points: 46,613
+  - Mean distance: 92.72
+  - Std distance: 111.86
+
+- Untrained flies (aligned to barrier opening):
+  - Data points: 46,866
+  - Mean distance: 78.67
+  - Std distance: 102.86
+
+### Pre-Opening Period (t < 0)
+During this period, flies are physically separated by a barrier:
+- Trained mean distance: 155.27
+- Untrained mean distance: 147.19
+
+### Post-Opening Period (t > 0)
+After the barrier is removed and flies can interact:
+- Trained mean distance: 77.44
+- Untrained mean distance: 61.87
+
+## Statistical Tests
+
+### Pre-opening period comparison:
+- Trained mean: 155.27, Untrained mean: 147.19
+- T-statistic: 4.4024, P-value: 1.08e-05
+- Cohen's d: 0.0654
+
+### Post-opening period comparison:
+- Trained mean: 72.52, Untrained mean: 63.86
+- T-statistic: 30.4693, P-value: 1.08e-203
+- Cohen's d: 0.0914
+
+### Within-group changes:
+- Trained flies - Pre vs Post:
+  - Mean change: -82.75
+  - T-statistic: 77.2805, P-value: 0.00e+00
+  - Cohen's d: -0.8313
+
+- Untrained flies - Pre vs Post:
+  - Mean change: -83.33
+  - T-statistic: 84.4719, P-value: 0.00e+00
+  - Cohen's d: -0.9022
+
+## Interpretation
+
+1. **Pre-opening**: Both groups show high distances as expected since flies are separated by a barrier. There is a statistically significant difference between groups (p < 0.001), but the effect size is very small (Cohen's d = 0.0654).
+
+2. **Post-opening**: Both groups show reduced distances after the barrier is removed, indicating interaction between flies. There is a statistically significant difference between groups (p < 0.001) with a small effect size (Cohen's d = 0.0914).
+
+3. **Within-group changes**: Both trained and untrained flies show significant decreases in distance after the barrier opens (p < 0.001). The effect sizes are large for both groups (Cohen's d = -0.8313 for trained, -0.9022 for untrained).
+
+4. **Group Differences**: 
+   - Trained flies maintain slightly higher distances than untrained flies both before and after barrier opening.
+   - This could indicate different behavioral patterns between trained and untrained flies, though the effect sizes are small.
+
+## Visualization
+
+The plot "avg_distance_aligned_to_opening.png" shows:
+- Blue line: Average distance for trained flies (smoothed)
+- Red line: Average distance for untrained flies (smoothed)
+- Black dashed line: Time of barrier opening (t=0)
+
+The visualization clearly shows the transition from high distances (pre-opening) to lower distances (post-opening) for both groups, with trained flies consistently maintaining slightly higher distances than untrained flies.