├── .gitignore ├── LICENSE ├── README.md ├── data_labeling ├── DeepCell_Label_RGB.md ├── DeepCell_Label_interactive_demo.md └── README.md ├── getting_started ├── Image-Processing.ipynb ├── Neural-Networks.ipynb ├── Python-101.ipynb ├── README.md └── intro_docs │ ├── Docker.md │ ├── Git.md │ ├── Installs.md │ ├── Python-Style-Guide.md │ └── Unix.md ├── model_training ├── README.md └── training_with_deepcell-tf.ipynb ├── pretrained_models ├── README.md └── resources │ ├── DeepCell_website_download.png │ ├── DeepCell_website_predict.png │ ├── DeepCell_website_submit.png │ ├── DeepCell_website_upload.png │ ├── example_input_combined.tif │ ├── example_input_membrane.tif │ ├── example_input_nucleus.tif │ ├── multiplex_model_input.png │ ├── multiplex_model_output.png │ ├── nuclear_model_input.png │ └── nuclear_model_output.png ├── requirements.txt └── resources ├── cat.jpg ├── cat_tinted.jpg ├── contrast_adjustment.png ├── img_000000000_FITC_001.png ├── img_000000000_Far-red_001.png ├── 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