├── README.md ├── REST ├── bin │ ├── .vs │ │ ├── ProjectSettings.json │ │ ├── VSWorkspaceState.json │ │ ├── bin │ │ │ └── v17 │ │ │ │ └── .suo │ │ └── slnx.sqlite │ ├── __init__.py │ ├── __init__.pyc │ ├── __pycache__ │ │ ├── __init__.cpython-37.pyc │ │ ├── predict.cpython-37.pyc │ │ └── refine.cpython-37.pyc │ ├── isonet.py │ ├── make_mask.py │ ├── predict.py │ └── refine.py ├── losses │ ├── __pycache__ │ │ ├── losses.cpython-37.pyc │ │ └── wedge_power.cpython-37.pyc │ ├── losses.py │ └── wedge_power.py ├── models │ ├── __init__.py │ ├── __pycache__ │ │ └── __init__.cpython-37.pyc │ └── unet │ │ ├── __init__.py │ │ ├── __pycache__ │ │ ├── __init__.cpython-37.pyc │ │ ├── blocks.cpython-37.pyc │ │ ├── build_old_net.cpython-37.pyc │ │ ├── builder.cpython-37.pyc │ │ ├── builder_fullconv.cpython-37.pyc │ │ ├── builder_fullconv_old.cpython-37.pyc │ │ └── model.cpython-37.pyc │ │ ├── blocks.py │ │ ├── build_old_net.py │ │ ├── builder.py │ │ ├── builder_fullconv.py │ │ ├── builder_fullconv_old.py │ │ └── model.py ├── old │ ├── argparser.py │ ├── fft.py │ ├── generate.py │ ├── image-old.py │ ├── mwr3D │ ├── mwr3D.py │ ├── mwr3D_2 │ ├── mwr3D_predict │ ├── mwr3D_predict.py │ ├── mwr3D_predict_cube.py │ ├── mwrPredict (copy) │ ├── mwrPredict1 │ ├── net2D.py │ ├── prepare.py │ ├── psf (copy).py │ ├── psf.py │ ├── reconstruct_even_odd.py │ ├── settings.py │ ├── simulation │ │ ├── __init__.py │ │ ├── get_traindata.py │ │ ├── simulate.py │ │ └── unet.py │ ├── unet2.py │ └── unet_old.py ├── preprocessing │ ├── __pycache__ │ │ ├── cubes.cpython-37.pyc │ │ ├── cubes.cpython-38.pyc │ │ ├── cubes.cpython-39.pyc │ │ ├── img_processing.cpython-37.pyc │ │ ├── img_processing.cpython-39.pyc │ │ ├── prepare.cpython-37.pyc │ │ ├── prepare.cpython-39.pyc │ │ ├── simulate.cpython-37.pyc │ │ └── simulate.cpython-39.pyc │ ├── cubes.py │ ├── img_processing.py │ ├── noiseGenerator.py │ ├── prepare.py │ └── simulate.py ├── training │ ├── __pycache__ │ │ ├── data_sequence.cpython-37.pyc │ │ ├── predict.cpython-37.pyc │ │ ├── predict.cpython-39.pyc │ │ └── train.cpython-37.pyc │ ├── data_sequence.py │ ├── predict.py │ └── train.py └── util │ ├── __init__.py │ ├── __init__.py_backup │ ├── __init__.pyc │ ├── __pycache__ │ ├── __init__.cpython-37.pyc │ ├── __init__.cpython-39.pyc │ ├── dict2attr.cpython-37.pyc │ ├── dict2attr.cpython-39.pyc │ ├── image.cpython-37.pyc │ ├── metadata.cpython-37.pyc │ ├── metadata.cpython-39.pyc │ ├── noise_generator.cpython-37.pyc │ ├── noise_generator.cpython-39.pyc │ ├── norm.cpython-37.pyc │ ├── rotations.cpython-37.pyc │ ├── rotations.cpython-39.pyc │ ├── toTile.cpython-37.pyc │ ├── utils.cpython-37.pyc │ └── utils.cpython-39.pyc │ ├── dict2attr.py │ ├── filter.py │ ├── filter.pyc │ ├── generate.py │ ├── generate_params.py │ ├── image.py │ ├── image.pyc │ ├── io.py │ ├── io.pyc │ ├── metadata.py │ ├── noise_generator.py │ ├── norm.py │ ├── norm.pyc │ ├── prepare.pyc │ ├── processing.py │ ├── rotations.py │ ├── toTile.py │ ├── utils.py │ └── utils.pyc ├── for_predict_emample.star ├── generate_subtomostar.py ├── img ├── EMPIAR10045-01.png └── nucleosome-01.png ├── onestep.sh ├── process1.py ├── process2 ├── REST │ ├── .ipynb_checkpoints │ │ └── Tutorial1-checkpoint.ipynb │ ├── .vs │ │ ├── IsoNet │ │ │ └── v17 │ │ │ │ └── .suo │ │ ├── ProjectSettings.json │ │ ├── REST │ │ │ └── v17 │ │ │ │ └── .suo │ │ ├── VSWorkspaceState.json │ │ ├── alter │ │ │ └── v17 │ │ │ │ ├── .suo │ │ │ │ └── Browse.VC.db │ │ └── slnx.sqlite │ ├── LICENSE │ ├── __pycache__ │ │ ├── __init__.cpython-37.pyc │ │ ├── __init__.cpython-38.pyc │ │ └── __init__.cpython-39.pyc │ ├── bin │ │ ├── .vs │ │ │ ├── ProjectSettings.json │ │ │ ├── VSWorkspaceState.json │ │ │ ├── bin │ │ │ │ └── v17 │ │ │ │ │ └── .suo │ │ │ └── slnx.sqlite │ │ ├── __init__.py │ │ ├── __init__.pyc │ │ ├── __pycache__ │ │ │ ├── __init__.cpython-37.pyc │ │ │ ├── predict.cpython-37.pyc │ │ │ └── refine.cpython-37.pyc │ │ ├── isonet.py │ │ ├── make_mask.py │ │ ├── predict.py │ │ └── refine.py │ ├── losses │ │ ├── __pycache__ │ │ │ ├── losses.cpython-37.pyc │ │ │ └── wedge_power.cpython-37.pyc │ │ ├── losses.py │ │ └── wedge_power.py │ ├── models │ │ ├── __init__.py │ │ ├── __pycache__ │ │ │ └── __init__.cpython-37.pyc │ │ └── unet │ │ │ ├── __init__.py │ │ │ ├── __pycache__ │ │ │ ├── __init__.cpython-37.pyc │ │ │ ├── blocks.cpython-37.pyc │ │ │ ├── build_old_net.cpython-37.pyc │ │ │ ├── builder.cpython-37.pyc │ │ │ ├── builder_fullconv.cpython-37.pyc │ │ │ ├── builder_fullconv_old.cpython-37.pyc │ │ │ └── model.cpython-37.pyc │ │ │ ├── blocks.py │ │ │ ├── build_old_net.py │ │ │ ├── builder.py │ │ │ ├── builder_fullconv.py │ │ │ ├── builder_fullconv_old.py │ │ │ └── model.py │ ├── old │ │ ├── argparser.py │ │ ├── fft.py │ │ ├── generate.py │ │ ├── image-old.py │ │ ├── mwr3D │ │ ├── mwr3D.py │ │ ├── mwr3D_2 │ │ ├── mwr3D_predict │ │ ├── mwr3D_predict.py │ │ ├── mwr3D_predict_cube.py │ │ ├── mwrPredict (copy) │ │ ├── mwrPredict1 │ │ ├── net2D.py │ │ ├── prepare.py │ │ ├── psf (copy).py │ │ ├── psf.py │ │ ├── reconstruct_even_odd.py │ │ ├── settings.py │ │ ├── simulation │ │ │ ├── __init__.py │ │ │ ├── get_traindata.py │ │ │ ├── simulate.py │ │ │ └── unet.py │ │ ├── unet2.py │ │ └── unet_old.py │ ├── preprocessing │ │ ├── __pycache__ │ │ │ ├── cubes.cpython-37.pyc │ │ │ ├── cubes.cpython-38.pyc │ │ │ ├── cubes.cpython-39.pyc │ │ │ ├── img_processing.cpython-37.pyc │ │ │ ├── img_processing.cpython-39.pyc │ │ │ ├── prepare.cpython-37.pyc │ │ │ ├── prepare.cpython-39.pyc │ │ │ ├── simulate.cpython-37.pyc │ │ │ └── simulate.cpython-39.pyc │ │ ├── cubes.py │ │ ├── img_processing.py │ │ ├── noiseGenerator.py │ │ ├── prepare.py │ │ └── simulate.py │ ├── training │ │ ├── __pycache__ │ │ │ ├── data_sequence.cpython-37.pyc │ │ │ ├── predict.cpython-37.pyc │ │ │ ├── predict.cpython-39.pyc │ │ │ └── train.cpython-37.pyc │ │ ├── data_sequence.py │ │ ├── predict.py │ │ └── train.py │ └── util │ │ ├── __init__.py │ │ ├── __init__.py_backup │ │ ├── __init__.pyc │ │ ├── __pycache__ │ │ ├── __init__.cpython-37.pyc │ │ ├── __init__.cpython-39.pyc │ │ ├── dict2attr.cpython-37.pyc │ │ ├── dict2attr.cpython-39.pyc │ │ ├── image.cpython-37.pyc │ │ ├── metadata.cpython-37.pyc │ │ ├── metadata.cpython-39.pyc │ │ ├── noise_generator.cpython-37.pyc │ │ ├── noise_generator.cpython-39.pyc │ │ ├── norm.cpython-37.pyc │ │ ├── rotations.cpython-37.pyc │ │ ├── rotations.cpython-39.pyc │ │ ├── toTile.cpython-37.pyc │ │ ├── utils.cpython-37.pyc │ │ └── utils.cpython-39.pyc │ │ ├── dict2attr.py │ │ ├── filter.py │ │ ├── filter.pyc │ │ ├── generate.py │ │ ├── generate_params.py │ │ ├── image.py │ │ ├── image.pyc │ │ ├── io.py │ │ ├── io.pyc │ │ ├── metadata.py │ │ ├── noise_generator.py │ │ ├── norm.py │ │ ├── norm.pyc │ │ ├── prepare.pyc │ │ ├── processing.py │ │ ├── rotations.py │ │ ├── toTile.py │ │ ├── utils.py │ │ └── utils.pyc └── process2.py ├── process3_linux.py ├── process3_windows.py ├── process4.py ├── 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