├── .ipynb_checkpoints └── deep_af_demo-checkpoint.ipynb ├── LICENSE ├── README.md ├── deep_af_demo.ipynb ├── figures ├── LED_array_diagram.pdf ├── LED_patterns.pdf ├── cells.tif ├── example_single_led_images.pdf ├── ftexample.tif ├── good_test_performance.pdf ├── histology.tif ├── mag_vs_real.pdf ├── multiLED_illuminations.pdf ├── na_dependence.pdf ├── path_section_generalization.pdf ├── path_section_generalization_finetuned.pdf ├── rand_phase_mag_images.pdf ├── randfourier0.tif ├── randfourier1.tif ├── randfourier2.tif ├── randfourier3.tif ├── single_led_img0.tif ├── single_led_img1.tif ├── single_led_img2.tif ├── single_led_img3.tif └── training_data_dependence.pdf └── util ├── __pycache__ ├── afutil.cpython-36.pyc ├── defocusnetwork.cpython-36.pyc ├── imageprocessing.cpython-36.pyc ├── magellanhdf.cpython-36.pyc └── pygellan.cpython-36.pyc ├── afutil.py ├── defocusnetwork.py ├── imageprocessing.py ├── magellanhdf.py ├── pygellan.py └── quasi_dome_design.json 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