Index

_

_generate_next_value_() (patch_denoise.space_time.base.DenoiserName static method) (patch_denoise.space_time.base.ExtraOutput static method) (patch_denoise.space_time.base.Recombination static method) _get_patch_param() (patch_denoise.space_time.base.BaseSpaceTimeDenoiser method) _make_results_file() (patch_denoise.bindings.nipype.PatchDenoise method) _opt_loss_x() (patch_denoise.gpu.denoiser.OptimalSVDDenoiser method)

_patch_processing() (patch_denoise.space_time.lowrank.HybridPCADenoiser method) (patch_denoise.space_time.lowrank.MPPCADenoiser method) (patch_denoise.space_time.lowrank.RawSVDDenoiser method) _run_interface() (patch_denoise.bindings.nipype.NoiseStdMap method) (patch_denoise.bindings.nipype.PatchDenoise method) _shrink() (patch_denoise.gpu.denoiser.OptimalSVDDenoiser method)

A

adaptive_thresholding() (in module patch_denoise.denoise) AdaptiveDenoiser (class in patch_denoise.space_time.lowrank) add2patch() (patch_denoise.space_time.base.PatchedArray method)

add_frames() (in module patch_denoise.simulation.activations) add_temporal_gaussian_noise() (in module patch_denoise.simulation.noise) add_temporal_rician_noise() (in module patch_denoise.simulation.noise) autotune_batch_size() (in module patch_denoise.gpu.autotune)

B

BaseSpaceTimeDenoiser (class in patch_denoise.space_time.base)

bids_extra_path() (in module patch_denoise.bindings.cli)

C

check_center_recombination_overlap() (in module patch_denoise.space_time.base)

COUNT (patch_denoise.space_time.base.ExtraOutput attribute)

D

denoise() (patch_denoise.space_time.base.BaseSpaceTimeDenoiser method) (patch_denoise.space_time.lowrank.AdaptiveDenoiser method) (patch_denoise.space_time.lowrank.HybridPCADenoiser method) (patch_denoise.space_time.lowrank.NordicDenoiser method) (patch_denoise.space_time.lowrank.OptimalSVDDenoiser method) (patch_denoise.space_time.lowrank.RawSVDDenoiser method)

DenoiserName (class in patch_denoise.space_time.base)

E

eig_analysis() (in module patch_denoise.space_time.utils) eig_synthesis() (in module patch_denoise.space_time.utils)

estimate_noise() (in module patch_denoise.space_time.utils) ExtraOutput (class in patch_denoise.space_time.base)

F

fast_cuda_check() (in module patch_denoise.bindings.utils)

forward() (patch_denoise.gpu.denoiser.MPPCADenoiser method) (patch_denoise.gpu.denoiser.OptimalSVDDenoiser method)

G

g_factor_map() (in module patch_denoise.simulation.phantom) get_batch() (patch_denoise.gpu.dataloader.PatchDataset method)

get_patch() (patch_denoise.space_time.base.PatchedArray method) get_patch_locs() (in module patch_denoise.space_time.utils)

H

hybrid_pca() (in module patch_denoise.denoise)

HybridPCADenoiser (class in patch_denoise.space_time.lowrank)

I

idx2slice() (patch_denoise.space_time.base.PatchedArray method)

input_spec (patch_denoise.bindings.nipype.NoiseStdMap attribute) (patch_denoise.bindings.nipype.PatchDenoise attribute)

L

linear_to_patch_indices() (patch_denoise.space_time.base.PatchedArray class method)

load_as_array() (in module patch_denoise.bindings.utils) load_complex_nifti() (in module patch_denoise.bindings.utils)

M

main() (in module patch_denoise.bindings.cli) main_gpu() (in module patch_denoise.gpu.main) make_denoiser() (in module patch_denoise.gpu.main) marchenko_pastur_median() (in module patch_denoise.space_time.utils) module patch_denoise patch_denoise.bindings patch_denoise.bindings.cli patch_denoise.bindings.nipype patch_denoise.bindings.utils patch_denoise.denoise patch_denoise.gpu patch_denoise.gpu.autotune patch_denoise.gpu.dataloader patch_denoise.gpu.denoiser patch_denoise.gpu.main patch_denoise.simulation patch_denoise.simulation.activations patch_denoise.simulation.noise patch_denoise.simulation.phantom patch_denoise.space_time patch_denoise.space_time.base patch_denoise.space_time.lowrank patch_denoise.space_time.utils

mp_pca() (in module patch_denoise.denoise) MPPCADenoiser (class in patch_denoise.gpu.denoiser) (class in patch_denoise.space_time.lowrank) mr_ellipsoid_parameters() (in module patch_denoise.simulation.phantom) mr_shepp_logan() (in module patch_denoise.simulation.phantom) mr_shepp_logan_t2_star() (in module patch_denoise.simulation.phantom)

N

n_patches (patch_denoise.space_time.base.PatchedArray property) NOISE_STD (patch_denoise.space_time.base.ExtraOutput attribute) NoiseStdMap (class in patch_denoise.bindings.nipype)

NoiseStdMapInputSpec (class in patch_denoise.bindings.nipype) NoiseStdMapOutputSpec (class in patch_denoise.bindings.nipype) nordic() (in module patch_denoise.denoise) NordicDenoiser (class in patch_denoise.space_time.lowrank)

O

optimal_thresholding() (in module patch_denoise.denoise) OptimalSVDDenoiser (class in patch_denoise.gpu.denoiser) (class in patch_denoise.space_time.lowrank)

output_spec (patch_denoise.bindings.nipype.NoiseStdMap attribute) (patch_denoise.bindings.nipype.PatchDenoise attribute)

P

parse_dims() (in module patch_denoise.bindings.cli) patch_denoise module patch_denoise.bindings module patch_denoise.bindings.cli module patch_denoise.bindings.nipype module patch_denoise.bindings.utils module patch_denoise.denoise module patch_denoise.gpu module patch_denoise.gpu.autotune module patch_denoise.gpu.dataloader module patch_denoise.gpu.denoiser module patch_denoise.gpu.main module

patch_denoise.simulation module patch_denoise.simulation.activations module patch_denoise.simulation.noise module patch_denoise.simulation.phantom module patch_denoise.space_time module patch_denoise.space_time.base module patch_denoise.space_time.lowrank module patch_denoise.space_time.utils module PatchDataset (class in patch_denoise.gpu.dataloader) PatchDenoise (class in patch_denoise.bindings.nipype) PatchDenoiseInputSpec (class in patch_denoise.bindings.nipype) PatchDenoiseOutputSpec (class in patch_denoise.bindings.nipype) PatchedArray (class in patch_denoise.space_time.base) patchify_tensor() (in module patch_denoise.gpu.dataloader)

R

RANK (patch_denoise.space_time.base.ExtraOutput attribute) raw_svt() (in module patch_denoise.denoise)

RawSVDDenoiser (class in patch_denoise.space_time.lowrank) Recombination (class in patch_denoise.space_time.base)

S

save_array() (in module patch_denoise.bindings.utils) select_patches_to_process() (in module patch_denoise.gpu.dataloader) set_patch() (patch_denoise.space_time.base.PatchedArray method)

sliding_sum_nd() (in module patch_denoise.gpu.dataloader) sure_atn_cost() (in module patch_denoise.space_time.lowrank) svd_analysis() (in module patch_denoise.space_time.utils) svd_synthesis() (in module patch_denoise.space_time.utils)

W

WEIGHTS (patch_denoise.space_time.base.ExtraOutput attribute)