Index

A

add() (fnet.FnetLogger method) (fnet.fnetlogger.FnetLogger method) add_augmentations() (in module fnet.utils.general_utils) add_logging_file_handler() (in module fnet.utils.general_utils)

add_parser_arguments() (in module fnet.cli.init) (in module fnet.cli.predict) (in module fnet.cli.train_model) apply_on_single_zstack() (fnet.fnet_model.Model method)

B

BufferedPatchDataset (class in fnet.data) (class in fnet.data.bufferedpatchdataset)

C

Capper (class in fnet.transforms) corr_coef() (in module fnet.metrics) corr_coef_chan0() (in module fnet.metrics)

create_ensemble() (in module fnet.models) create_formatter() (in module fnet.utils.general_utils) Cropper (class in fnet.transforms)

D

do_nothing() (in module fnet.transforms) DummyCustomFnetDataset() (in module fnet.data) (in module fnet.data.dummydataset)

DummyFnetDataset() (in module fnet.data) (in module fnet.data.dummydataset) DummyModel (class in fnet.nn_modules.dummy)

E

evaluate() (fnet.fnet_model.Model method)

F

files_from_dir() (in module fnet.utils.general_utils) flip_x() (in module fnet.transforms) flip_y() (in module fnet.transforms) fnet (module) fnet.cli (module) fnet.cli.init (module) fnet.cli.main (module) fnet.cli.predict (module) fnet.cli.train_model (module) fnet.data (module) fnet.data.bufferedpatchdataset (module) fnet.data.dummydataset (module) fnet.data.fnetdataset (module) fnet.data.multichtiffdataset (module) fnet.data.tiffdataset (module) fnet.fnet_ensemble (module) fnet.fnet_model (module) fnet.fnetlogger (module) fnet.losses (module) fnet.metrics (module) fnet.models (module) fnet.nn_modules (module)

fnet.nn_modules.dummy (module) fnet.nn_modules.fnet_nn_2d (module) fnet.nn_modules.fnet_nn_3d (module) fnet.nn_modules.fnet_nn_3d_params (module) fnet.predict_piecewise (module) fnet.transforms (module) fnet.utils (module) fnet.utils.general_utils (module) fnet.utils.model_utils (module) fnet.utils.split_dataset (module) fnet.utils.viz_utils (module) FnetDataset (class in fnet.data) (class in fnet.data.fnetdataset) FnetEnsemble (class in fnet.fnet_ensemble) FnetLogger (class in fnet) (class in fnet.fnetlogger) forward() (fnet.losses.HeteroscedasticLoss method) (fnet.losses.WeightedMSE method) (fnet.nn_modules.fnet_nn_2d.Net method) (fnet.nn_modules.fnet_nn_2d.SubNet2Conv method) (fnet.nn_modules.fnet_nn_3d_params.Net method) (fnet.nn_modules.fnet_nn_3d_params.SubNet2Conv method)

G

get_args() (in module fnet.utils.general_utils) get_batch() (fnet.data.BufferedPatchDataset method) (fnet.data.bufferedpatchdataset.BufferedPatchDataset method) get_bpds_train() (in module fnet.cli.train_model) get_bpds_val() (in module fnet.cli.train_model) get_buffer_history() (fnet.data.BufferedPatchDataset method) (fnet.data.bufferedpatchdataset.BufferedPatchDataset method) get_dataset() (in module fnet.cli.predict) get_indices() (in module fnet.cli.predict) get_information() (fnet.data.FnetDataset method) (fnet.data.fnetdataset.FnetDataset method) (fnet.data.MultiChTiffDataset method) (fnet.data.multichtiffdataset.MultiChTiffDataset method) (fnet.data.TiffDataset method) (fnet.data.tiffdataset.TiffDataset method)

get_per_param_options() (in module fnet.fnet_model) get_random_patch() (fnet.data.BufferedPatchDataset method) (fnet.data.bufferedpatchdataset.BufferedPatchDataset method) get_state() (fnet.fnet_model.Model method) gpu_ids (fnet.fnet_ensemble.FnetEnsemble attribute)

H

HeteroscedasticLoss (class in fnet.losses)

I

init_cuda() (in module fnet.cli.train_model) init_fnet_logging() (in module fnet.utils.general_utils) insert_new_element_into_buffer() (fnet.data.BufferedPatchDataset method) (fnet.data.bufferedpatchdataset.BufferedPatchDataset method)

int_or_float() (in module fnet.utils.split_dataset) item_from_dataset() (in module fnet.cli.predict)

L

load_from_json() (in module fnet.cli.predict) load_model() (in module fnet.models) load_or_init_model() (in module fnet.models)

load_state() (fnet.fnet_ensemble.FnetEnsemble method) (fnet.fnet_model.Model method) log_training_options() (in module fnet.cli.train_model)

M

main() (in module fnet.cli.init) (in module fnet.cli.main) (in module fnet.cli.predict) (in module fnet.cli.train_model) (in module fnet.utils.split_dataset)

metadata() (fnet.data.FnetDataset property) (fnet.data.fnetdataset.FnetDataset property) Model (class in fnet.fnet_model) move_optim() (in module fnet.utils.model_utils) MultiChTiffDataset (class in fnet.data) (class in fnet.data.multichtiffdataset)

N

Net (class in fnet.nn_modules.fnet_nn_2d) (class in fnet.nn_modules.fnet_nn_3d) (class in fnet.nn_modules.fnet_nn_3d_params)

norm_around_center() (in module fnet.transforms) Normalize (class in fnet.transforms) normalize() (in module fnet.transforms)

P

Padder (class in fnet.transforms) parse_model() (in module fnet.cli.predict) paths_model (fnet.fnet_ensemble.FnetEnsemble attribute) plot_loss() (in module fnet.utils.viz_utils) plot_metric() (in module fnet.utils.viz_utils)

predict() (fnet.fnet_ensemble.FnetEnsemble method) (fnet.fnet_model.Model method) predict_on_batch() (fnet.fnet_model.Model method) predict_piecewise() (fnet.fnet_model.Model method) (in module fnet.predict_piecewise) Propper (class in fnet.transforms)

R

Resizer (class in fnet.transforms)

retry_if_oserror() (in module fnet.utils.general_utils)

S

save() (fnet.fnet_ensemble.FnetEnsemble method) (fnet.fnet_model.Model method) save_args_as_json() (in module fnet.cli.predict) save_default_predict_options() (in module fnet.cli.init) save_default_train_options() (in module fnet.cli.init) save_example_scripts() (in module fnet.cli.init) save_options_json() (in module fnet.cli.init)

save_predictions_csv() (in module fnet.cli.predict) save_tif() (in module fnet.cli.predict) set_seeds() (in module fnet.cli.train_model) str_to_class() (in module fnet.utils.general_utils) str_to_object() (in module fnet.utils.general_utils) SubNet2Conv (class in fnet.nn_modules.fnet_nn_2d) (class in fnet.nn_modules.fnet_nn_3d_params)

T

test_on_batch() (fnet.fnet_model.Model method) test_on_iterator() (fnet.fnet_model.Model method) TiffDataset (class in fnet.data) (class in fnet.data.tiffdataset) to_csv() (fnet.FnetLogger method) (fnet.fnetlogger.FnetLogger method)

to_gpu() (fnet.fnet_ensemble.FnetEnsemble method) (fnet.fnet_model.Model method) to_objects() (in module fnet.utils.general_utils) ToFloat (class in fnet.transforms) train_model() (in module fnet.cli.train_model) train_on_batch() (fnet.fnet_model.Model method)

U

undo_last() (fnet.transforms.Cropper method) (fnet.transforms.Padder method) (fnet.transforms.Propper method)

W

WeightedMSE (class in fnet.losses)

whats_my_name() (in module fnet.utils.general_utils)