Index

A

activation_from_config() (in module deoxys.model.activations) activation_map() (deoxys.model.model.Model method)

activation_maximization() (deoxys.model.model.Model method) Activations (class in deoxys.model.activations) activations (deoxys.model.activations.Activations attribute)

B

backprop() (deoxys.model.model.Model method) BasePreprocessor (class in deoxys.data.preprocessor)

BinaryFbeta (class in deoxys.model.metrics) BinaryFbetaLoss (class in deoxys.model.losses)

C

call() (deoxys.model.losses.BinaryFbetaLoss method) (deoxys.model.losses.ModifiedDiceLoss method) callback_from_config() (in module deoxys.model.callbacks) Callbacks (class in deoxys.model.callbacks) callbacks (deoxys.model.callbacks.Callbacks attribute)

ChannelRemoval (class in deoxys.data.preprocessor) ChannelSelector (class in deoxys.data.preprocessor) ClassificationImageAugmentation2D (class in deoxys.data.preprocessor) ClassificationImageAugmentation3D (class in deoxys.data.preprocessor) compile() (deoxys.model.model.Model method)

D

data_information (deoxys.model.callbacks.PredictionCheckpoint attribute) data_reader (deoxys.model.model.Model attribute) data_readers (deoxys.data.data_reader.DataReaders attribute) DataGenerator (class in deoxys.data.data_generator) DataReader (class in deoxys.data.data_reader) datareader_from_config() (in module deoxys.data.data_reader) DataReaders (class in deoxys.data.data_reader) DBLogger (class in deoxys.model.callbacks) deconv() (deoxys.model.model.Model method) deoxys.data.data_generator (module) deoxys.data.data_reader (module) deoxys.data.preprocessor (module) deoxys.model.activations (module)

deoxys.model.callbacks (module) deoxys.model.layers (module) deoxys.model.losses (module) deoxys.model.metrics (module) deoxys.model.model (module) deoxys.model.optimizers (module) DeoxysModelCallback (class in deoxys.model.callbacks) DeoxysModelCheckpoint (class in deoxys.model.callbacks) description (deoxys.data.data_generator.DataGenerator attribute) (deoxys.data.data_generator.H5DataGenerator attribute) (deoxys.data.data_generator.H5PatchGenerator attribute) (deoxys.data.data_generator.HDF5DataGenerator attribute) Dice (class in deoxys.model.metrics) DummyPreprocessor (class in deoxys.data.preprocessor)

E

evaluate() (deoxys.model.model.Model method) evaluate_generator() (deoxys.model.model.Model method) evaluate_test() (deoxys.model.model.Model method)

evaluate_train() (deoxys.model.model.Model method) evaluate_val() (deoxys.model.model.Model method) EvaluationCheckpoint (class in deoxys.model.callbacks)

F

Fbeta (class in deoxys.model.metrics) fit() (deoxys.model.model.Model method)

fit_generator() (deoxys.model.model.Model method) fit_train() (deoxys.model.model.Model method)

G

generate() (deoxys.data.data_generator.DataGenerator method) (deoxys.data.data_generator.H5DataGenerator method) (deoxys.data.data_generator.H5PatchGenerator method) (deoxys.data.data_generator.HDF5DataGenerator method)

get_config() (deoxys.model.metrics.BinaryFbeta method) (deoxys.model.metrics.Dice method) (deoxys.model.metrics.Fbeta method) guided_backprop() (deoxys.model.model.Model method)

H

H5DataGenerator (class in deoxys.data.data_generator) H5PatchGenerator (class in deoxys.data.data_generator) H5PatchReader (class in deoxys.data.data_reader)

H5Reader (class in deoxys.data.data_reader) HDF5DataGenerator (class in deoxys.data.data_generator) HDF5Reader (class in deoxys.data.data_reader) HounsfieldWindowingPreprocessor (class in deoxys.data.preprocessor)

I

ImageAffineTransformPreprocessor (class in deoxys.data.preprocessor) ImageAugmentation2D (class in deoxys.data.preprocessor)

ImageAugmentation3D (class in deoxys.data.preprocessor) ImageNormalizerPreprocessor (class in deoxys.data.preprocessor) is_compiled (deoxys.model.model.Model attribute)

K

KerasImagePreprocessorX (class in deoxys.data.preprocessor)

KerasImagePreprocessorY (class in deoxys.data.preprocessor)

L

layer_from_config() (in module deoxys.model.layers) Layers (class in deoxys.model.layers) layers (deoxys.model.layers.Layers attribute) (deoxys.model.model.Model attribute)

load_model() (in module deoxys.model.model) loss_from_config() (in module deoxys.model.losses) Losses (class in deoxys.model.losses) losses (deoxys.model.losses.Losses attribute)

M

max_filter() (deoxys.model.model.Model method) metric_from_config() (in module deoxys.model.metrics) Metrics (class in deoxys.model.metrics) metrics (deoxys.model.metrics.Metrics attribute) Model (class in deoxys.model.model)

model (deoxys.model.model.Model attribute) model_from_config() (in module deoxys.model.model) model_from_full_config() (in module deoxys.model.model) model_from_keras_config() (in module deoxys.model.model) model_from_keras_json() (in module deoxys.model.model) ModifiedDiceLoss (class in deoxys.model.losses)

N

next_fold() (deoxys.data.data_generator.H5DataGenerator method) (deoxys.data.data_generator.H5PatchGenerator method) (deoxys.data.data_generator.HDF5DataGenerator method)

next_seg() (deoxys.data.data_generator.H5DataGenerator method) (deoxys.data.data_generator.H5PatchGenerator method) (deoxys.data.data_generator.HDF5DataGenerator method) node_graph (deoxys.model.model.Model attribute)

O

on_epoch_end() (deoxys.model.callbacks.DBLogger method) (deoxys.model.callbacks.DeoxysModelCheckpoint method) (deoxys.model.callbacks.EvaluationCheckpoint method) (deoxys.model.callbacks.PredictionCheckpoint method) on_train_begin() (deoxys.model.callbacks.EvaluationCheckpoint method) optimizer_from_config() (in module deoxys.model.optimizers) Optimizers (class in deoxys.model.optimizers)

optimizers (deoxys.model.optimizers.Optimizers attribute) original_test (deoxys.data.data_reader.DataReader attribute) (deoxys.data.data_reader.H5PatchReader attribute) (deoxys.data.data_reader.H5Reader attribute) (deoxys.data.data_reader.HDF5Reader attribute) original_val (deoxys.data.data_reader.H5PatchReader attribute) (deoxys.data.data_reader.H5Reader attribute) (deoxys.data.data_reader.HDF5Reader attribute)

P

perform_windowing() (deoxys.data.preprocessor.WindowingPreprocessor method) predict() (deoxys.model.model.Model method) predict_generator() (deoxys.model.model.Model method) predict_test() (deoxys.model.model.Model method) predict_test_generator() (deoxys.model.model.Model method)

predict_val() (deoxys.model.model.Model method) predict_val_generator() (deoxys.model.model.Model method) PredictionCheckpoint (class in deoxys.model.callbacks) preprocessor_from_config() (in module deoxys.data.preprocessor) Preprocessors (class in deoxys.data.preprocessor) preprocessors (deoxys.data.preprocessor.Preprocessors attribute)

R

register() (deoxys.data.data_reader.DataReaders method) (deoxys.data.preprocessor.Preprocessors method) (deoxys.model.activations.Activations method) (deoxys.model.callbacks.Callbacks method) (deoxys.model.layers.Layers method) (deoxys.model.losses.Losses method) (deoxys.model.metrics.Metrics method) (deoxys.model.optimizers.Optimizers method) register_activation() (in module deoxys.model.activations)

register_callback() (in module deoxys.model.callbacks) register_datareader() (in module deoxys.data.data_reader) register_layer() (in module deoxys.model.layers) register_loss() (in module deoxys.model.losses) register_metric() (in module deoxys.model.metrics) register_optimizer() (in module deoxys.model.optimizers) register_preprocessor() (in module deoxys.data.preprocessor) result() (deoxys.model.metrics.BinaryFbeta method) (deoxys.model.metrics.Dice method) (deoxys.model.metrics.Fbeta method)

S

save() (deoxys.model.model.Model method) set_deoxys_model() (deoxys.model.callbacks.DeoxysModelCallback method)

SingleChannelPreprocessor (class in deoxys.data.preprocessor) sub_model() (deoxys.model.model.Model method)

T

test_generator (deoxys.data.data_reader.DataReader attribute) (deoxys.data.data_reader.H5PatchReader attribute) (deoxys.data.data_reader.H5Reader attribute) (deoxys.data.data_reader.HDF5Reader attribute) total_batch (deoxys.data.data_generator.DataGenerator attribute) (deoxys.data.data_generator.H5DataGenerator attribute) (deoxys.data.data_generator.H5PatchGenerator attribute) (deoxys.data.data_generator.HDF5DataGenerator attribute) train_generator (deoxys.data.data_reader.DataReader attribute) (deoxys.data.data_reader.H5PatchReader attribute) (deoxys.data.data_reader.H5Reader attribute) (deoxys.data.data_reader.HDF5Reader attribute) transform() (deoxys.data.preprocessor.BasePreprocessor method) (deoxys.data.preprocessor.ChannelRemoval method) (deoxys.data.preprocessor.ChannelSelector method) (deoxys.data.preprocessor.ClassificationImageAugmentation2D method) (deoxys.data.preprocessor.ClassificationImageAugmentation3D method) (deoxys.data.preprocessor.DummyPreprocessor method) (deoxys.data.preprocessor.ImageAffineTransformPreprocessor method) (deoxys.data.preprocessor.ImageAugmentation2D method) (deoxys.data.preprocessor.ImageNormalizerPreprocessor method) (deoxys.data.preprocessor.KerasImagePreprocessorX method) (deoxys.data.preprocessor.KerasImagePreprocessorY method) (deoxys.data.preprocessor.SingleChannelPreprocessor method) (deoxys.data.preprocessor.UnetPaddingPreprocessor method) (deoxys.data.preprocessor.WindowingPreprocessor method)

U

UnetPaddingPreprocessor (class in deoxys.data.preprocessor) unregister() (deoxys.data.data_reader.DataReaders method) (deoxys.data.preprocessor.Preprocessors method) (deoxys.model.activations.Activations method) (deoxys.model.callbacks.Callbacks method) (deoxys.model.layers.Layers method) (deoxys.model.losses.Losses method) (deoxys.model.metrics.Metrics method) (deoxys.model.optimizers.Optimizers method) unregister_activation() (in module deoxys.model.activations)

unregister_callback() (in module deoxys.model.callbacks) unregister_datareader() (in module deoxys.data.data_reader) unregister_layer() (in module deoxys.model.layers) unregister_loss() (in module deoxys.model.losses) unregister_metric() (in module deoxys.model.metrics) unregister_optimizer() (in module deoxys.model.optimizers) unregister_preprocessor() (in module deoxys.data.preprocessor) update_state() (deoxys.model.metrics.BinaryFbeta method) (deoxys.model.metrics.Dice method) (deoxys.model.metrics.Fbeta method)

V

val_generator (deoxys.data.data_reader.DataReader attribute) (deoxys.data.data_reader.H5PatchReader attribute) (deoxys.data.data_reader.H5Reader attribute) (deoxys.data.data_reader.HDF5Reader attribute)

W

WindowingPreprocessor (class in deoxys.data.preprocessor)