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CAREamics

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- CAREamist API
  CAREamist API
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  - Using CAREamics
    
    Using CAREamics
    
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- Lightning API
  Lightning API
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Applications
Applications
- Noise2Void
  Noise2Void
  - BSD68
  - Flywing
  - Hagen dataset
  - JUMP dataset
  - Mouse Nuclei
  - SEM
  - SUPPORT dataset
  - W2S dataset
- N2V2
  N2V2
  - BSD68
  - SEM
- structN2V
  structN2V
  - Convallaria
- Noise2Noise
  Noise2Noise
  - SEM
- CARE
  CARE
  - denoising U2OS
- Lightning API
  Lightning API
  - BSD68 N2V
Algorithms
Algorithms
Code Reference
Code Reference
- careamics
  careamics
  - careamist
  - cli
    cli
    
    conf
    
    main
    
    utils
  - config
    config
    
    algorithms
    algorithms
    
    care_algorithm_model
    
    n2n_algorithm_model
    
    n2v_algorithm_model
    
    unet_algorithm_model
    
    vae_algorithm_model
    
    architectures
    architectures
    
    architecture_model
    
    lvae_model
    
    unet_model
    
    callback_model
    
    configuration
    
    configuration_factories
    
    configuration_io
    
    data
    data
    
    data_model
    
    inference_model
    
    likelihood_model
    
    loss_model
    
    nm_model
    
    optimizer_models
    
    support
    support
    
    supported_activations
    
    supported_algorithms
    
    supported_architectures
    
    supported_data
    
    supported_loggers
    
    supported_losses
    
    supported_optimizers
    
    supported_pixel_manipulations
    
    supported_struct_axis
    
    supported_transforms
    
    tile_information
    
    training_model
    
    transformations
    transformations
    
    n2v_manipulate_model
    
    normalize_model
    
    transform_model
    
    transform_unions
    
    xy_flip_model
    
    xy_random_rotate90_model
    
    validators
    validators
    
    model_validators
    
    validator_utils
  - conftest
  - dataset
    dataset
    
    dataset_utils
    dataset_utils
    
    dataset_utils
    
    file_utils
    
    iterate_over_files
    
    running_stats
    
    in_memory_dataset
    
    in_memory_pred_dataset
    
    in_memory_tiled_pred_dataset
    
    iterable_dataset
    
    iterable_pred_dataset
    
    iterable_tiled_pred_dataset
    
    patching
    patching
    
    patching
    
    random_patching
    
    sequential_patching
    
    validate_patch_dimension
    
    tiling
    tiling
    
    collate_tiles
    
    lvae_tiled_patching
    
    tiled_patching
    
    zarr_dataset
  - dataset_ng
    dataset_ng
    
    dataset
    dataset
    
    dataset
    
    factory
    
    demo_patch_extractor
    
    legacy_interoperability
    
    patch_extractor
    patch_extractor
    
    demo_custom_image_stack_loader
    
    image_stack
    image_stack
    
    image_stack_protocol
    
    in_memory_image_stack
    
    zarr_image_stack
    
    image_stack_loader
    
    patch_extractor
    
    patch_extractor_factory
    
    patching_strategies
    patching_strategies
    
    patching_strategy_protocol
    
    random_patching
    
    sequential_patching
    
    tiling_strategy
    
    whole_sample
  - file_io
    file_io
    
    read
    read
    
    get_func
    
    tiff
    
    zarr
    
    write
    write
    
    get_func
    
    tiff
  - lightning
    lightning
    
    callbacks
    callbacks
    
    hyperparameters_callback
    
    prediction_writer_callback
    prediction_writer_callback
    
    file_path_utils
    
    prediction_writer_callback
    
    write_strategy
    
    write_strategy_factory
    
    progress_bar_callback
    
    lightning_module
    
    predict_data_module
    
    train_data_module
  - losses
    losses
    
    fcn
    fcn
    
    losses
    
    loss_factory
    
    lvae
    lvae
    
    loss_utils
    
    losses
  - lvae_training
    lvae_training
    
    calibration
    
    dataset
    dataset
    
    config
    
    lc_dataset
    
    multich_dataset
    
    multifile_dataset
    
    types
    
    utils
    utils
    
    data_utils
    
    empty_patch_fetcher
    
    index_manager
    
    index_switcher
    
    eval_utils
    
    get_config
    
    lightning_module
    
    metrics
    
    train_lvae
    
    train_utils
  - model_io
    model_io
    
    bioimage
    bioimage
    
    _readme_factory
    
    bioimage_utils
    
    cover_factory
    
    model_description
    
    bmz_io
    
    model_io_utils
  - models
    models
    
    activation
    
    layers
    
    lvae
    lvae
    
    layers
    
    likelihoods
    
    lvae
    
    noise_models
    
    stochastic
    
    utils
    
    model_factory
    
    unet
  - prediction_utils
    prediction_utils
    
    lvae_prediction
    
    lvae_tiling_manager
    
    prediction_outputs
    
    stitch_prediction
  - transforms
    transforms
    
    compose
    
    n2v_manipulate
    
    n2v_manipulate_torch
    
    normalize
    
    pixel_manipulation
    
    pixel_manipulation_torch
    
    struct_mask_parameters
    
    transform
    
    tta
    
    xy_flip
    
    xy_random_rotate90
  - utils
    utils
    
    autocorrelation
    
    base_enum
    
    context
    
    lightning_utils
    
    logging
    
    metrics
    
    path_utils
    
    plotting
    
    ram
    
    receptive_field
    
    serializers
    
    torch_utils
    
    version
- careamics_napari
  careamics_napari
  - _version
  - careamics_utils
    careamics_utils
    
    algorithms
    
    callback
    
    configuration
    
    free_memory
  - prediction_plugin
  - resources
    resources
    
    resources
  - sample_data
  - signals
    signals
    
    prediction_signal
    
    prediction_status
    
    saving_signal
    
    saving_status
    
    training_signal
    
    training_status
  - training_plugin
  - utils
    utils
    
    axes_utils
    
    gpu_utils
  - widgets
    widgets
    
    algorithm_choice
    
    axes_widget
    
    banner_widget
    
    configuration_window
    
    folder_widget
    
    gpu_widget
    
    magicgui_widgets
    
    predict_data_widget
    
    prediction_widget
    
    qt_widgets
    
    saving_widget
    
    scroll_wrapper
    
    tbplot_widget
    
    train_data_widget
    
    train_progress_widget
    
    training_configuration_widget
    
    training_widget
  - workers
    workers
    
    prediction_worker
    
    saving_worker
    
    training_worker
- careamics_portfolio
  careamics_portfolio
  - denoiseg_datasets
  - denoising_datasets
  - portfolio
  - portfolio_entry
  - utils
    utils
    
    download_utils
    
    pale_blue_dot
    
    pale_blue_dot_zip

Code Reference
careamics_napari
index.md

CAREamics napari#

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