README.md

ScalpPipeline (pipeline.py)

Refactored pipeline combining all steps into a single class.

Usage

python pipeline.py --pixel_ratio 2.54

Arguments:

• --root_dir: Root directory of the project (default: .)
• --pixel_ratio: Pixel to micrometer ratio (default: 2.54)

Dependencies (Files)

The pipeline requires the following files and directories to exist:

1. Input Images:

   • datasets/data/ : Directory containing input images (.jpg, .jpeg, .png).

2. Model Weights:

   • segmentation/model/U2NET.pth : Pre-trained U2NET model.
   • sam_vit_h_4b8939.pth : SAM (Segment Anything Model) checkpoint (ViT-H).

3. Code Modules:

   • segmentation/data_loader.py : Data loading utilities for U2NET.

Output

Results are saved in:

• datasets/seg_train/ (U2NET masks)
• prediction/sam_result/sam_val/ (SAM masks)
• prediction/ensemble_result/ensemble_val/ (Ensemble masks)
• alopecia/thickness_result/ (Thickness data & visualization)
• alopecia/count_result/ (Hair count CSV & visualization)