Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | V | Z _ __call__() (snake.core.engine.base.BaseAcquisitionEngine method) (snake.core.parallel.SHM_Wrapper method) _acquire_ksp_job() (snake.core.engine.base.BaseAcquisitionEngine method) _asdict() (snake.core.parallel.ArrayProps method) _dataset (snake.mrd_utils.loader.MRDLoader property) _generate_next_value_() (snake.mrd_utils.utils.ACQ method) _init_model_nufft() (snake.core.engine.nufft.NufftAcquisitionEngine static method) _job_model_simple() (snake.core.engine.cartesian.EPIAcquisitionEngine static method) (snake.core.engine.cartesian.EVIAcquisition static method) (snake.core.engine.nufft.NufftAcquisitionEngine static method) _job_model_T2s() (snake.core.engine.cartesian.EPIAcquisitionEngine static method) (snake.core.engine.cartesian.EVIAcquisition static method) (snake.core.engine.nufft.NufftAcquisitionEngine static method) _job_trajectories() (snake.core.engine.cartesian.EPIAcquisitionEngine method) (snake.core.engine.cartesian.EVIAcquisition method) (snake.core.engine.nufft.NufftAcquisitionEngine method) _make() (snake.core.parallel.ArrayProps class method) _read_xml_header() (snake.mrd_utils.loader.MRDLoader method) _reconstruct_nufft() (snake.toolkit.reconstructors.pysap.ZeroFilledReconstructor method) _replace() (snake.core.parallel.ArrayProps method) _repr_html_() (snake.core.simulation.GreConfig method) (snake.core.simulation.HardwareConfig method) (snake.core.simulation.SimConfig method) _single_frame() (snake.core.sampling.base.BaseSampler method) (snake.core.sampling.samplers.EPI3dAcquisitionSampler method) (snake.core.sampling.samplers.EVI3dAcquisitionSampler method) (snake.core.sampling.samplers.LoadTrajectorySampler method) (snake.core.sampling.samplers.StackOfSpiralSampler method) A AbstractHandler (class in snake.core.handlers.base) ACQ (class in snake.mrd_utils.utils) acquisition() (in module snake.toolkit.cli.acquisition) acquisition_cli() (in module snake.toolkit.cli.acquisition) ActivationMixin (class in snake.core.handlers.activations.activations) add_all_acq_mrd() (snake.core.sampling.base.BaseSampler method) (snake.core.sampling.samplers.EPI3dAcquisitionSampler method) (snake.core.sampling.samplers.EVI3dAcquisitionSampler method) (snake.core.sampling.samplers.NonCartesianAcquisitionSampler method) add_coil_cov_mrd() (in module snake.mrd_utils.writer) add_dynamic_mrd() (in module snake.mrd_utils.writer) add_motion() (in module snake.core.handlers.motion.utils) add_phantom_mrd() (in module snake.mrd_utils.writer) add_smaps_mrd() (in module snake.mrd_utils.writer) add_tissue() (snake.core.phantom.static.Phantom method) anat_shape (snake.core.phantom.static.Phantom property) AngleRotation (class in snake.core.sampling.factories) apply() (snake.core.phantom.dynamic.DynamicData method) apply_motion_to_phantom() (in module snake.core.handlers.motion.image) apply_noise() (in module snake.core.handlers.noise) apply_rotation_at_center() (in module snake.core.handlers.motion.utils) apply_weights() (in module snake.core.handlers.utils) (snake.core.handlers.activations.activations.ActivationMixin static method) array_from_shm() (in module snake.core.parallel) array_to_shm() (in module snake.core.parallel) ArrayProps (class in snake.core.parallel) axis3dcut() (in module snake.toolkit.plotting) B b64encode2obj() (in module snake.mrd_utils.utils) BaseAcquisitionEngine (class in snake.core.engine.base) BaseReconstructor (class in snake.toolkit.reconstructors.base) BaseSampler (class in snake.core.sampling.base) block_design() (in module snake.core.handlers.activations.bold) BlockActivationHandler (class in snake.core.handlers.activations.activations) C CartesianFrameDataLoader (class in snake.mrd_utils.loader) check_trajectory() (in module snake.core.sampling.factories) cleanup_cuda() (in module snake.toolkit.cli.config) conf_validator() (in module snake.toolkit.cli.config) ConfigSNAKE (class in snake.toolkit.cli.config) D dir_cos() (in module snake.core.sampling.samplers) dtype (snake.core.parallel.ArrayProps attribute) DynamicData (class in snake.core.phantom.dynamic) E EngineConfig (class in snake.toolkit.cli.config) EPI3dAcquisitionSampler (class in snake.core.sampling.samplers) EPIAcquisitionEngine (class in snake.core.engine.cartesian) EVI3dAcquisitionSampler (class in snake.core.sampling.samplers) evi_factory() (in module snake.core.sampling.factories) EVIAcquisition (class in snake.core.engine.cartesian) F fft() (in module snake.core.engine.utils) (in module snake.toolkit.reconstructors.fourier) flip2center() (in module snake.core.sampling.factories) from_brainweb() (snake.core.phantom.static.Phantom class method) from_cfg() (snake.core.handlers.base.HandlerList class method) from_guerin_kern() (snake.core.phantom.static.Phantom class method) from_mrd_dataset() (snake.core.phantom.static.Phantom class method) from_shared_memory() (snake.core.phantom.static.Phantom class method) from_shepp_logan() (snake.core.phantom.static.Phantom class method) G get_all_dynamic() (snake.mrd_utils.loader.MRDLoader method) get_axis_properties() (in module snake.toolkit.plotting) get_bold() (in module snake.core.handlers.activations.bold) get_cartesian_mask() (in module snake.core.sampling.factories) get_coil_cov() (snake.mrd_utils.loader.MRDLoader method) get_contrast_gre() (in module snake.core.engine.utils) get_coolgraywarm() (in module snake.toolkit.plotting) get_dynamic() (snake.core.handlers.activations.activations.ActivationMixin method) (snake.core.handlers.base.AbstractHandler method) (snake.core.handlers.motion.image.RandomMotionImageHandler method) (snake.core.handlers.noise.NoiseHandler method) (snake.mrd_utils.loader.MRDLoader method) get_dynamic_kspace() (snake.core.handlers.base.AbstractHandler method) get_event_ts() (in module snake.core.handlers.activations.bold) get_handler() (in module snake.core.handlers.base) get_ideal_phantom() (in module snake.core.engine.utils) get_indices_inside_ellipsoid() (in module snake.core.handlers.activations.roi) get_kspace_frame() (snake.mrd_utils.loader.CartesianFrameDataLoader method) (snake.mrd_utils.loader.MRDLoader method) (snake.mrd_utils.loader.NonCartesianFrameDataLoader method) get_kspace_slice_loc() (in module snake.core.sampling.factories) get_mask_cuts_mask() (in module snake.toolkit.plotting) get_mrd_header() (in module snake.mrd_utils.writer) get_next_frame() (snake.core.sampling.base.BaseSampler method) get_noise() (in module snake.core.engine.utils) get_phantom() (snake.mrd_utils.loader.MRDLoader method) get_phantom_state() (in module snake.core.engine.utils) get_reconstructor() (in module snake.toolkit.reconstructors.base) get_sim_conf() (snake.mrd_utils.loader.MRDLoader method) get_smaps() (in module snake.core.smaps) (snake.mrd_utils.loader.MRDLoader method) get_static() (snake.core.handlers.activations.activations.ActivationMixin method) (snake.core.handlers.base.AbstractHandler method) (snake.core.handlers.noise.NoiseHandler method) get_waveform_id() (in module snake.mrd_utils.utils) GreConfig (class in snake.core.simulation) H HandlerList (class in snake.core.handlers.base) HardwareConfig (class in snake.core.simulation) header (snake.mrd_utils.loader.MRDLoader property) I idx_in_ellipse() (in module snake.core.phantom.shepp_logan) ifft() (in module snake.toolkit.reconstructors.fourier) in_shared_memory() (snake.core.phantom.static.Phantom method) iter_frames() (snake.mrd_utils.loader.MRDLoader method) K KspaceDynamicData (class in snake.core.phantom.dynamic) L list_handlers() (in module snake.core.handlers.base) list_reconstructors() (in module snake.toolkit.reconstructors.base) LoadTrajectorySampler (class in snake.core.sampling.samplers) log (snake.core.engine.base.BaseAcquisitionEngine property) (snake.core.engine.cartesian.EPIAcquisitionEngine property) (snake.core.engine.cartesian.EVIAcquisition property) (snake.core.engine.nufft.NufftAcquisitionEngine property) (snake.core.handlers.activations.activations.BlockActivationHandler property) (snake.core.handlers.base.AbstractHandler property) (snake.core.handlers.motion.image.RandomMotionImageHandler property) (snake.core.handlers.noise.NoiseHandler property) (snake.core.sampling.base.BaseSampler property) (snake.core.sampling.samplers.EPI3dAcquisitionSampler property) (snake.core.sampling.samplers.EVI3dAcquisitionSampler property) (snake.core.sampling.samplers.LoadTrajectorySampler property) (snake.core.sampling.samplers.NonCartesianAcquisitionSampler property) (snake.core.sampling.samplers.StackOfSpiralSampler property) (snake.toolkit.reconstructors.base.BaseReconstructor property) (snake.toolkit.reconstructors.pysap.SequentialReconstructor property) (snake.toolkit.reconstructors.pysap.ZeroFilledReconstructor property) M main() (in module snake.toolkit.cli.main) main_cli() (in module snake.toolkit.cli.main) make_base_mrd() (in module snake.mrd_utils.writer) make_hydra_cli() (in module snake.toolkit.cli.config) max_n_shots (snake.core.simulation.SimConfig property) MetaEngine (class in snake.core.engine.base) MetaHandler (class in snake.core.handlers.base) MetaReconstructor (class in snake.toolkit.reconstructors.base) MetaSampler (class in snake.core.sampling.base) module snake.core snake.core.engine snake.core.engine.base snake.core.engine.cartesian snake.core.engine.nufft snake.core.engine.utils snake.core.handlers snake.core.handlers.activations snake.core.handlers.activations.activations snake.core.handlers.activations.bold snake.core.handlers.activations.roi snake.core.handlers.base snake.core.handlers.motion snake.core.handlers.motion.image snake.core.handlers.motion.utils snake.core.handlers.noise snake.core.handlers.utils snake.core.parallel snake.core.phantom snake.core.phantom.data snake.core.phantom.dynamic snake.core.phantom.shepp_logan snake.core.phantom.static snake.core.phantom.utils snake.core.sampling snake.core.sampling.base snake.core.sampling.factories snake.core.sampling.samplers snake.core.simulation snake.core.smaps snake.mrd_utils snake.mrd_utils.loader snake.mrd_utils.utils snake.mrd_utils.writer snake.toolkit snake.toolkit.cli snake.toolkit.cli.acquisition snake.toolkit.cli.config snake.toolkit.cli.main snake.toolkit.cli.reconstruction snake.toolkit.plotting snake.toolkit.reconstructors snake.toolkit.reconstructors.base snake.toolkit.reconstructors.fourier snake.toolkit.reconstructors.pysap motion_generator() (in module snake.core.handlers.motion.utils) mr_ellipsoid_parameters() (in module snake.core.phantom.shepp_logan) mr_shepp_logan() (in module snake.core.phantom.shepp_logan) MRDLoader (class in snake.mrd_utils.loader) N n_acquisition (snake.mrd_utils.loader.MRDLoader property) n_coils (snake.mrd_utils.loader.MRDLoader property) n_frames (snake.mrd_utils.loader.MRDLoader property) n_sample (snake.mrd_utils.loader.MRDLoader property) n_shots (snake.mrd_utils.loader.MRDLoader property) n_tissues (snake.core.phantom.static.Phantom property) name (snake.core.parallel.ArrayProps attribute) NoiseHandler (class in snake.core.handlers.noise) NonCartesianAcquisitionSampler (class in snake.core.sampling.samplers) NonCartesianFrameDataLoader (class in snake.mrd_utils.loader) NufftAcquisitionEngine (class in snake.core.engine.nufft) O obj2b64encode() (in module snake.mrd_utils.utils) P parse_sim_conf() (in module snake.mrd_utils.loader) parse_waveform_information() (in module snake.mrd_utils.loader) Phantom (class in snake.core.phantom.static) PhantomConfig (class in snake.toolkit.cli.config) plot_frames_activ() (in module snake.toolkit.plotting) PropTissueEnum (class in snake.core.phantom.static) R radial_factory() (in module snake.core.sampling.factories) RandomMotionImageHandler (class in snake.core.handlers.motion.image) read_mrd_header() (in module snake.mrd_utils.loader) reconstruct() (snake.toolkit.reconstructors.base.BaseReconstructor method) (snake.toolkit.reconstructors.pysap.SequentialReconstructor method) (snake.toolkit.reconstructors.pysap.ZeroFilledReconstructor method) reconstruction() (in module snake.toolkit.cli.reconstruction) reconstruction_cli() (in module snake.toolkit.cli.reconstruction) res_mm (snake.core.simulation.SimConfig property) resize_tissues() (in module snake.core.phantom.utils) RestartStrategy (class in snake.toolkit.reconstructors.pysap) rotate_trajectory() (in module snake.core.sampling.factories) rotation() (in module snake.core.handlers.motion.utils) rotation2D() (in module snake.core.handlers.motion.utils) rotation3d() (in module snake.core.handlers.motion.utils) run_parallel() (in module snake.core.parallel) S SequentialReconstructor (class in snake.toolkit.reconstructors.pysap) serialize() (snake.core.handlers.base.HandlerList method) serialize_array() (in module snake.core.phantom.static) (in module snake.mrd_utils.utils) setup() (snake.toolkit.reconstructors.base.BaseReconstructor method) (snake.toolkit.reconstructors.pysap.SequentialReconstructor method) (snake.toolkit.reconstructors.pysap.ZeroFilledReconstructor method) shape (snake.core.parallel.ArrayProps attribute) SHM_Wrapper (class in snake.core.parallel) sim_tr_ms (snake.core.simulation.SimConfig property) SimConfig (class in snake.core.simulation) snake.core module snake.core.engine module snake.core.engine.base module snake.core.engine.cartesian module snake.core.engine.nufft module snake.core.engine.utils module snake.core.handlers module snake.core.handlers.activations module snake.core.handlers.activations.activations module snake.core.handlers.activations.bold module snake.core.handlers.activations.roi module snake.core.handlers.base module snake.core.handlers.motion module snake.core.handlers.motion.image module snake.core.handlers.motion.utils module snake.core.handlers.noise module snake.core.handlers.utils module snake.core.parallel module snake.core.phantom module snake.core.phantom.data module snake.core.phantom.dynamic module snake.core.phantom.shepp_logan module snake.core.phantom.static module snake.core.phantom.utils module snake.core.sampling module snake.core.sampling.base module snake.core.sampling.factories module snake.core.sampling.samplers module snake.core.simulation module snake.core.smaps module snake.mrd_utils module snake.mrd_utils.loader module snake.mrd_utils.utils module snake.mrd_utils.writer module snake.toolkit module snake.toolkit.cli module snake.toolkit.cli.acquisition module snake.toolkit.cli.config module snake.toolkit.cli.main module snake.toolkit.cli.reconstruction module snake.toolkit.plotting module snake.toolkit.reconstructors module snake.toolkit.reconstructors.base module snake.toolkit.reconstructors.fourier module snake.toolkit.reconstructors.pysap module snake_handler_resolver() (in module snake.toolkit.cli.config) snake_sampler_resolver() (in module snake.toolkit.cli.config) stack_spiral_factory() (in module snake.core.sampling.factories) stacked_epi2d() (in module snake.core.sampling.factories) stacked_epi_factory() (in module snake.core.sampling.factories) StackOfSpiralSampler (class in snake.core.sampling.samplers) StatConfig (class in snake.toolkit.cli.config) T TissueFile (class in snake.core.phantom.static) to_mrd_dataset() (snake.core.phantom.static.Phantom method) to_yaml() (snake.core.handlers.base.AbstractHandler method) (snake.core.handlers.base.HandlerList method) trajectory_generator() (in module snake.core.sampling.factories) translation() (in module snake.core.handlers.motion.utils) U unserialize_array() (in module snake.core.phantom.static) (in module snake.mrd_utils.utils) V validate_rng() (in module snake.core.sampling.factories) vds_factory() (in module snake.core.sampling.factories) VDSorder (class in snake.core.sampling.factories) VDSpdf (class in snake.core.sampling.factories) Z ZeroFilledReconstructor (class in snake.toolkit.reconstructors.pysap)
