├── .gitignore ├── .vscode └── settings.json ├── CONTRIBUTING.md ├── README.md ├── config ├── channeltype │ ├── 1ch.yaml │ ├── 2ch.yaml │ ├── 4pi.yaml │ └── MF.yaml ├── config_base.yaml ├── config_user.yaml ├── parameter description.md ├── path │ └── config_path.yaml ├── psftype │ ├── FD.yaml │ ├── insitu.yaml │ ├── insitu_FD.yaml │ ├── voxel.yaml │ └── zernike.yaml └── systemtype │ ├── 4pi.yaml │ ├── Ast_Li.yaml │ ├── DM_Li.yaml │ ├── LLS.yaml │ ├── M2.yaml │ ├── M4.yaml │ ├── MF.yaml │ └── TP.yaml ├── demo ├── Description of output parameters.md ├── datapath.yaml ├── demo_beadPSF_1ch.ipynb ├── demo_beadPSF_1ch_LLS.ipynb ├── demo_beadPSF_2ch.ipynb ├── demo_beadPSF_4pi.ipynb ├── demo_beadPSF_FD.ipynb ├── demo_eval_system.ipynb ├── demo_eval_system_FD.ipynb ├── demo_genPSF.ipynb ├── demo_insituPSF_1ch.ipynb ├── demo_insituPSF_2ch.ipynb ├── demo_insituPSF_4pi.ipynb ├── demo_insituPSF_FD.ipynb └── demo_insituPSF_TP.ipynb ├── environment.yml ├── psflearning ├── __init__.py ├── dataloader.py ├── io │ ├── __init__.py │ ├── h5.py │ └── param.py ├── learning │ ├── __init__.py │ ├── data_representation │ │ ├── PreprocessedImageDataInterface_file.py │ │ ├── PreprocessedImageDataMultiChannel_file.py │ │ ├── PreprocessedImageDataMultiChannel_smlm_file.py │ │ ├── PreprocessedImageDataSingleChannel_file.py │ │ ├── PreprocessedImageDataSingleChannel_smlm_file.py │ │ └── __init__.py │ ├── fitters │ │ ├── FitterInterface_file.py │ │ ├── Fitter_file.py │ │ └── __init__.py │ ├── imagetools.py │ ├── loclib.py │ ├── loss_functions.py │ ├── optimizers.py │ ├── psfs │ │ ├── PSFInterface_file.py │ │ ├── PSFMultiChannel4pi_file.py │ │ ├── PSFMultiChannel4pi_smlm_file.py │ │ ├── PSFMultiChannel_file.py │ │ ├── PSFMultiChannel_smlm_file.py │ │ ├── PSFPupilBased4pi_file.py │ │ ├── PSFPupilBased_file.py │ │ ├── PSFPupilBased_vector_smlm_file.py │ │ ├── PSFVolumeBased4pi_file.py │ │ ├── PSFVolumeBased_file.py │ │ ├── PSFZernikeBased4pi_file.py │ │ ├── PSFZernikeBased4pi_smlm_file.py │ │ ├── PSFZernikeBased_FD_file.py │ │ ├── PSFZernikeBased_FD_smlm_file.py │ │ ├── PSFZernikeBased_file.py │ │ ├── PSFZernikeBased_vector_smlm_file.py │ │ └── __init__.py │ └── utilities.py ├── makeplots.py └── psflearninglib.py ├── setup.py ├── source ├── mleFit_LM_DLL │ ├── CPUmleFit_LM.dll │ ├── CPUmleFit_LM_4Pi.dll │ ├── CPUmleFit_LM_MultiChannel.dll │ ├── GPUmleFit_LM.dll │ ├── GPUmleFit_LM_4Pi.dll │ └── GPUmleFit_LM_MultiChannel.dll ├── mleFit_LM_dylib │ ├── libCPUmleFit_LM.dylib │ ├── libCPUmleFit_LM_4Pi.dylib │ └── libCPUmleFit_LM_MultiChannel.dylib └── mleFit_LM_so │ ├── libCPUmleFit_LM.so │ ├── libCPUmleFit_LM_4Pi.so │ ├── libCPUmleFit_LM_MultiChannel.so │ ├── libGPUmleFit_LM.so │ ├── libGPUmleFit_LM_4Pi.so │ └── libGPUmleFit_LM_MultiChannel.so ├── test └── unit │ └── io │ └── test_param.py └── tutorial ├── Tutorial for FD_aberrations.pdf ├── Tutorial for fit_global_dualchannel.pdf ├── tutorial fit_4pi.pdf └── tutorial for fit_fastsimple.pdf /.gitignore: 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