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+# Drag Force Particle Tracking Automatic
+
+Tracks brightfield particles across multiple stage speeds and outputs centroid data for drag force analysis.
+
+---
+
+## Workflow Overview
+
+1. **Load images** — Scans a main folder for speed subfolders (e.g. `0.1`, `0.15`, `0.2`, `0.25`). Each subfolder contains a TIFF image sequence for one stage speed. Images are converted to grayscale, cropped, and inverted.
+
+2. **Set tracking parameters** — Configure the number of particles, bounding radius, mask radius, and initial ring radius guess in the setup cell.
+
+3. **Click particle centers** — An interactive figure opens for each speed. Click the center of each particle in frame 0. Clicks are stored and used as the initial guess for tracking.
+
+4. **Test run** — Tracks the first 10 frames per speed to verify settings before committing to a full run.
+
+5. **Verify** — Overlays the fitted rings on frame 0 for each speed. If the circles look off, adjust click positions or tracking parameters and re-run the test.
+
+6. **Full tracking** — Runs the centroid-fitting algorithm across all frames for every speed. Each frame uses the previous frame's result as the next initial guess.
+
+7. **Save output** — Choose an output folder using the widget. Saves one CSV and one JSON metadata file per speed.
+
+---
+
+## Key Parameters (Setup Cell)
+
+| Parameter | Description |
+|---|---|
+| `MAIN_FOLDER` | Path to the folder containing speed subfolders |
+| `TIFF_PATTERN` | Glob pattern for images (default: `*.tiff`) |
+| `crop_dimensions` | Pixel crop region applied to every frame |
+| `num_particles` | Number of particles to track per frame |
+| `particle_r_bound` | Search radius (px) around each particle centroid |
+| `mask_r` | Masks bright pixels near the particle center (px) |
+| `r0` | Initial guess for the bright ring radius (px) |
+
+---
+
+## Output Format
+
+For each speed subfolder, two files are saved:
+
+- **`{speed} mms.csv`** — No header. Each row is one frame. Columns are `cx0, cy0, r0, cx1, cy1, r1, cx2, cy2, r2, ...` (3 columns per particle).
+- **`{speed} mms.json`** — Metadata: tracking parameters and initial click positions.
+
+---
+
+## Dependencies
+
+`numpy`, `pandas`, `scipy`, `scikit-image`, `pims`, `trackpy`, `matplotlib`, `ipywidgets`, `ipympl`
+
+Install missing packages with `pip install <package>`.
+
+---
+
+## Analysis
+
+Load the output CSVs into `Drag_auto.ipynb` to select stationary/movement regions interactively and compute drag force vs. displacement per particle.