cell-segmentation

Running feature extraction pipeline

Cropping and glcm features

1. Make sure that the paths image_dir and bbox_dir in feature/extract_features.py are correct. Path bbox_dir should contain .txt files with bounding boxes for all cell types in the same dir.
2. Run python -m feature.extract_features in your terminal
3. Cropped images will be saved to data/cropped and the glcm features will be saved to data/output

Gabor features

1. Run python -m feature.gabor_filters in your terminal.
2. Index of top 200 best features selected by AdaBoost will be saved to feature/output/gabor_index.csv