├── .gitattributes ├── .gitignore ├── README.md ├── deepcalcium ├── __init__.py ├── datasets │ ├── __init__.py │ └── nf.py ├── models │ ├── __init__.py │ ├── neurons │ │ ├── __init__.py │ │ └── unet_2d_summary.py │ └── spikes │ │ ├── .gitignore │ │ ├── __init__.py │ │ ├── c2s_segmentation.py │ │ └── unet_1d_segmentation.py └── utils │ ├── __init__.py │ ├── config.py │ ├── keras_helpers.py │ ├── neurons.py │ ├── runtime.py │ └── spikes.py ├── examples ├── __init__.py ├── neurons │ ├── nf_videos.py │ ├── unet2ds_nf.py │ └── unet2ds_sj.py └── spikes │ ├── __init__.py │ └── install_c2s.sh ├── media ├── nf_scores_unet2ds-tta_0.5422.png ├── nf_scores_unet2ds-tta_0.5689.png ├── nf_scores_unet2ds_0.5011_old_implementation.png ├── nf_scores_unet2ds_0.5089.png ├── nf_scores_unet2ds_0.5155.png ├── nf_scores_unet2ds_0.5356.png ├── nf_scores_unet2ds_0.5611.png ├── suli_fig_neurons_outlined_pred_01.png └── suli_fig_spikes_pred_00.png ├── notebooks ├── .gitignore ├── dlmia_workshop_figures.ipynb ├── dlmia_workshop_supplementary.ipynb ├── suli_figures.ipynb ├── unet2ds_inspection.ipynb └── unet2ds_random_hyperparameter_search.ipynb ├── requirements.txt └── setup.py /.gitattributes: -------------------------------------------------------------------------------- 1 | **/*.ipynb linguist-detectable=false 2 | -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/alexklibisz/deep-calcium/HEAD/.gitignore -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/alexklibisz/deep-calcium/HEAD/README.md -------------------------------------------------------------------------------- /deepcalcium/__init__.py: -------------------------------------------------------------------------------- 1 | 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