DeepReg
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Getting Started
Installation
Quick Start
Tutorial
Image Registration with Deep Learning
Design Experiments
Running DeepReg Remotely (on the Cluster)
DeepReg Demo
Introduction to DeepReg Demos
Paired Images
Unpaired Images
Grouped Images
Classical Registration
Documentation
Command Line Tools
Logging
Configuration File
Dataset Loader
Registry
Experimental Features
API Reference
Entry Point
Dataset Loader
File Loader
Registry
Network
Backbone
Layer
Loss
Optimizer
Contributing to DeepReg
Guidelines
Unit Test
DeepReg demo
Documentation
Release
DeepReg
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_
_register() (deepreg.registry.Registry method)
B
BendingEnergy (class in deepreg.loss.deform)
build_backbone() (deepreg.registry.Registry method)
build_bottom_block() (deepreg.model.backbone.local_net.LocalNet method)
(deepreg.model.backbone.u_net.UNet method)
build_config() (in module deepreg.predict)
(in module deepreg.train)
build_data_augmentation() (deepreg.registry.Registry method)
build_data_loader() (deepreg.registry.Registry method)
build_decode_conv_block() (deepreg.model.backbone.u_net.UNet method)
build_decode_layers() (deepreg.model.backbone.u_net.UNet method)
build_down_sampling_block() (deepreg.model.backbone.u_net.UNet method)
build_encode_conv_block() (deepreg.model.backbone.u_net.UNet method)
build_encode_layers() (deepreg.model.backbone.u_net.UNet method)
build_from_config() (deepreg.registry.Registry method)
build_inputs() (deepreg.model.network.RegistrationModel method)
build_layers() (deepreg.model.backbone.u_net.UNet method)
build_loss() (deepreg.model.network.DDFModel method)
(deepreg.model.network.DVFModel method)
(deepreg.model.network.RegistrationModel method)
(deepreg.registry.Registry method)
build_model() (deepreg.model.network.ConditionalModel method)
(deepreg.model.network.DDFModel method)
(deepreg.model.network.DVFModel method)
(deepreg.model.network.RegistrationModel method)
(deepreg.registry.Registry method)
build_optimizer() (in module deepreg.model.optimizer)
build_output_block() (deepreg.model.backbone.global_net.GlobalNet method)
(deepreg.model.backbone.local_net.LocalNet method)
(deepreg.model.backbone.u_net.UNet method)
build_pair_output_path() (in module deepreg.predict)
build_skip_block() (deepreg.model.backbone.u_net.UNet method)
build_up_sampling_block() (deepreg.model.backbone.local_net.LocalNet method)
(deepreg.model.backbone.u_net.UNet method)
C
calc_ncc() (deepreg.loss.image.LocalNormalizedCrossCorrelation method)
call() (deepreg.loss.deform.BendingEnergy method)
(deepreg.loss.deform.GradientNorm method)
(deepreg.loss.image.GlobalMutualInformation method)
(deepreg.loss.image.GlobalNormalizedCrossCorrelation method)
(deepreg.loss.image.LocalNormalizedCrossCorrelation method)
(deepreg.loss.label.CrossEntropy method)
(deepreg.loss.label.DiceScore method)
(deepreg.loss.label.JaccardIndex method)
(deepreg.loss.label.SumSquaredDifference method)
(deepreg.loss.util.MultiScaleMixin method)
(deepreg.loss.util.NegativeLossMixin method)
(deepreg.model.backbone.u_net.UNet method)
(deepreg.model.layer.IntDVF method)
(deepreg.model.layer.Warping method)
(deepreg.model.network.RegistrationModel method)
close() (deepreg.dataset.loader.grouped_loader.GroupedDataLoader method)
(deepreg.dataset.loader.h5_loader.H5FileLoader method)
(deepreg.dataset.loader.interface.FileLoader method)
(deepreg.dataset.loader.nifti_loader.NiftiFileLoader method)
(deepreg.dataset.loader.unpaired_loader.UnpairedDataLoader method)
compute_centroid() (in module deepreg.loss.label)
compute_centroid_distance() (in module deepreg.loss.label)
concat_images() (deepreg.model.network.RegistrationModel method)
ConditionalModel (class in deepreg.model.network)
contains() (deepreg.registry.Registry method)
Conv3dBlock (class in deepreg.model.layer)
copy() (deepreg.registry.Registry method)
CrossEntropy (class in deepreg.loss.label)
CrossEntropyLoss (class in deepreg.loss.label)
D
DDFModel (class in deepreg.model.network)
Deconv3dBlock (class in deepreg.model.layer)
deconv_output_padding() (in module deepreg.model.layer_util)
deepreg.dataset.loader.grouped_loader
module
deepreg.dataset.loader.h5_loader
module
deepreg.dataset.loader.nifti_loader
module
deepreg.dataset.loader.paired_loader
module
deepreg.dataset.loader.unpaired_loader
module
deepreg.loss.deform
module
deepreg.loss.image
module
deepreg.loss.label
module
deepreg.loss.util
module
deepreg.model.layer_util
module
deepreg.model.network
module
deepreg.model.optimizer
module
deepreg.predict
module
deepreg.train
module
deepreg.warp
module
DiceLoss (class in deepreg.loss.label)
DiceScore (class in deepreg.loss.label)
dict_without() (in module deepreg.model.network)
DVFModel (class in deepreg.model.network)
F
FileLoader (class in deepreg.dataset.loader.interface)
foreground_proportion() (in module deepreg.loss.label)
G
gaussian_filter_3d() (in module deepreg.model.layer_util)
get() (deepreg.registry.Registry method)
get_config() (deepreg.loss.deform.GradientNorm method)
(deepreg.loss.image.GlobalMutualInformation method)
(deepreg.loss.image.LocalNormalizedCrossCorrelation method)
(deepreg.loss.label.CrossEntropy method)
(deepreg.loss.label.DiceScore method)
(deepreg.loss.util.MultiScaleMixin method)
(deepreg.model.backbone.local_net.LocalNet method)
(deepreg.model.backbone.u_net.UNet method)
(deepreg.model.layer.IntDVF method)
(deepreg.model.layer.Warping method)
(deepreg.model.network.RegistrationModel method)
get_data() (deepreg.dataset.loader.h5_loader.H5FileLoader method)
(deepreg.dataset.loader.interface.FileLoader method)
(deepreg.dataset.loader.nifti_loader.NiftiFileLoader method)
get_data_ids() (deepreg.dataset.loader.h5_loader.H5FileLoader method)
(deepreg.dataset.loader.interface.FileLoader method)
(deepreg.dataset.loader.nifti_loader.NiftiFileLoader method)
get_inter_sample_indices() (deepreg.dataset.loader.grouped_loader.GroupedDataLoader method)
get_intra_sample_indices() (deepreg.dataset.loader.grouped_loader.GroupedDataLoader method)
get_n_bits_combinations() (in module deepreg.model.layer_util)
get_num_groups() (deepreg.dataset.loader.interface.FileLoader method)
get_num_images() (deepreg.dataset.loader.h5_loader.H5FileLoader method)
(deepreg.dataset.loader.interface.FileLoader method)
(deepreg.dataset.loader.nifti_loader.NiftiFileLoader method)
get_num_images_per_group() (deepreg.dataset.loader.interface.FileLoader method)
get_reference_grid() (in module deepreg.model.layer_util)
GlobalMutualInformation (class in deepreg.loss.image)
GlobalMutualInformationLoss (class in deepreg.loss.image)
GlobalNet (class in deepreg.model.backbone.global_net)
GlobalNormalizedCrossCorrelation (class in deepreg.loss.image)
GlobalNormalizedCrossCorrelationLoss (class in deepreg.loss.image)
gradient_dx() (in module deepreg.loss.deform)
gradient_dxyz() (in module deepreg.loss.deform)
gradient_dy() (in module deepreg.loss.deform)
gradient_dz() (in module deepreg.loss.deform)
GradientNorm (class in deepreg.loss.deform)
GroupedDataLoader (class in deepreg.dataset.loader.grouped_loader)
H
H5FileLoader (class in deepreg.dataset.loader.h5_loader)
I
IntDVF (class in deepreg.model.layer)
J
JaccardIndex (class in deepreg.loss.label)
JaccardLoss (class in deepreg.loss.label)
L
load_nifti_file() (in module deepreg.dataset.loader.nifti_loader)
LocalNet (class in deepreg.model.backbone.local_net)
LocalNormalizedCrossCorrelation (class in deepreg.loss.image)
LocalNormalizedCrossCorrelationLoss (class in deepreg.loss.image)
log_tensor_stats() (deepreg.model.network.RegistrationModel method)
M
main() (in module deepreg.predict)
(in module deepreg.train)
(in module deepreg.warp)
module
deepreg.dataset.loader.grouped_loader
deepreg.dataset.loader.h5_loader
deepreg.dataset.loader.nifti_loader
deepreg.dataset.loader.paired_loader
deepreg.dataset.loader.unpaired_loader
deepreg.loss.deform
deepreg.loss.image
deepreg.loss.label
deepreg.loss.util
deepreg.model.layer_util
deepreg.model.network
deepreg.model.optimizer
deepreg.predict
deepreg.train
deepreg.warp
MultiScaleMixin (class in deepreg.loss.util)
N
NegativeLossMixin (class in deepreg.loss.util)
NiftiFileLoader (class in deepreg.dataset.loader.nifti_loader)
P
PairedDataLoader (class in deepreg.dataset.loader.paired_loader)
plot_model() (deepreg.model.network.RegistrationModel method)
postprocess() (deepreg.model.network.ConditionalModel method)
(deepreg.model.network.DDFModel method)
(deepreg.model.network.DVFModel method)
(deepreg.model.network.RegistrationModel method)
predict() (in module deepreg.predict)
predict_on_dataset() (in module deepreg.predict)
pyramid_combination() (in module deepreg.model.layer_util)
R
register() (deepreg.registry.Registry method)
register_backbone() (deepreg.registry.Registry method)
register_data_augmentation() (deepreg.registry.Registry method)
register_data_loader() (deepreg.registry.Registry method)
register_file_loader() (deepreg.registry.Registry method)
register_loss() (deepreg.registry.Registry method)
register_model() (deepreg.registry.Registry method)
RegistrationModel (class in deepreg.model.network)
Registry (class in deepreg.registry)
resample() (in module deepreg.model.layer_util)
S
sample_index_generator() (deepreg.dataset.loader.grouped_loader.GroupedDataLoader method)
(deepreg.dataset.loader.paired_loader.PairedDataLoader method)
(deepreg.dataset.loader.unpaired_loader.UnpairedDataLoader method)
separable_filter() (in module deepreg.loss.util)
set_data_structure() (deepreg.dataset.loader.h5_loader.H5FileLoader method)
(deepreg.dataset.loader.interface.FileLoader method)
(deepreg.dataset.loader.nifti_loader.NiftiFileLoader method)
set_group_structure() (deepreg.dataset.loader.h5_loader.H5FileLoader method)
(deepreg.dataset.loader.interface.FileLoader method)
(deepreg.dataset.loader.nifti_loader.NiftiFileLoader method)
shape_sanity_check() (in module deepreg.warp)
SumSquaredDifference (class in deepreg.loss.label)
SumSquaredDifferenceLoss (class in deepreg.loss.label)
T
train() (in module deepreg.train)
U
UNet (class in deepreg.model.backbone.u_net)
UnpairedDataLoader (class in deepreg.dataset.loader.unpaired_loader)
V
validate_data_files() (deepreg.dataset.loader.grouped_loader.GroupedDataLoader method)
(deepreg.dataset.loader.paired_loader.PairedDataLoader method)
(deepreg.dataset.loader.unpaired_loader.UnpairedDataLoader method)
W
warp() (in module deepreg.warp)
warp_grid() (in module deepreg.model.layer_util)
Warping (class in deepreg.model.layer)
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