Index A | B | C | D | E | F | H | I | J | K | L | M | N | P | Q | R | S | T | U A adjoint() (mrax.reco.variational.MRIEncodingOperator method) Affine2DTransform (class in mrax.preprocessing.drift) analyze_groups() (in module mrax.analysis.group) apply_channel_scale_phase() (in module mrax.reco.processing) apply_image_support_mask() (in module mrax.reco.variational) apply_image_transform_stack() (in module mrax.preprocessing.drift) apply_readout_phase_shift() (in module mrax.reco.processing) apply_regrid_apodization_correction() (in module mrax.reco.variational) apply_samplewise_correction() (in module mrax.reco.processing) attach_units() (in module mrax.data_struct.quantity) auto_select_scans() (in module mrax.io.study_selection) autoscale_regularizer_configs() (in module mrax.opt.regularizers) B bruker_vendor_regrid_options() (in module mrax.io.bruker_import) build_cartesian_kspace_definition() (in module mrax.io.import_definitions) build_epi_kspace_definition() (in module mrax.io.import_definitions) build_experiment_dims() (in module mrax.data_struct.dimensions) build_imported_experiment_dataset() (in module mrax.io.import_definitions) build_loss() (in module mrax.core.loss_builder) build_non_cartesian_kspace_definition() (in module mrax.io.import_definitions) build_operator() (in module mrax.reco.variational) build_study_losses() (in module mrax.core.loss_builder) C cartesian_fft() (in module mrax.reco.pipeline) cartesian_ifft() (in module mrax.reco.pipeline) center_crop_spatial() (in module mrax.reco.variational) check_fit_sanity() (in module mrax.core.fit_sanity) checkerboard_phase() (in module mrax.reco.variational) collect_roi_stats() (in module mrax.analysis.roi) collect_subject_roi_stats() (in module mrax.analysis.group) combine_coil_images() (in module mrax.reco.variational) compare_group_stats() (in module mrax.analysis.group) conjugate_gradient() (in module mrax.opt.ops) crop_along_axis() (in module mrax.reco.processing) D DataSet (class in mrax.data_struct.dataset) denoise_bm3d() (in module mrax.preprocessing.denoise) denoise_bm4d() (in module mrax.preprocessing.denoise) denoise_filter() (in module mrax.preprocessing.denoise) describe() (mrax.data_struct.study.Study method) detect_experiment_type() (in module mrax.io.import_definitions) detect_pulseq_kspace_kind() (in module mrax.io.pulseq_import) DimensionSpec (class in mrax.data_struct.dimensions) discover_study_dirs() (in module mrax.core.batch) divergence2d() (in module mrax.opt.ops) E elliptical_support_mask() (in module mrax.reco.variational) estimate_field_scales() (in module mrax.opt.regularizers) estimate_param_scales() (in module mrax.opt.regularizers) estimate_radial_density() (in module mrax.reco.processing) estimate_sensitivities_cartesian() (in module mrax.reco.utils) Example (class in mrax.core.synthetic) execute_study_plan() (in module mrax.core.study_runner) execution_order() (mrax.data_struct.study.Study method) expand_observables_to_frames() (in module mrax.data_struct.dimensions) Experiment (class in mrax.data_struct.experiment) explain_sanity() (mrax.data_struct.experiment.Experiment method) (mrax.data_struct.study.Study method) extract_observables_from_metadata() (in module mrax.io.import_definitions) extract_timecourse() (in module mrax.analysis.timecourse) extract_timecourse_from_experiment() (in module mrax.analysis.timecourse) F fid_profiles_to_kspace() (in module mrax.reco.processing) FitSanityReport (class in mrax.core.fit_sanity) format_bruker_cartesian_image() (in module mrax.io.bruker_import) forward() (mrax.reco.variational.MRIEncodingOperator method) forward_gradient2d() (in module mrax.opt.ops) H higher_order_total_variation_penalty() (in module mrax.opt.regularizers) I ImportDefinition (class in mrax.io.import_definitions) insert_observables() (mrax.data_struct.experiment.Experiment method) isotropic_shrinkage() (in module mrax.opt.ops) iter_entries() (mrax.data_struct.study.Study method) J join_experiments() (in module mrax.data_struct.joint) JointExperiment (class in mrax.data_struct.joint) K KSpaceImportDefinition (class in mrax.io.import_definitions) L linear_drift_correct_dataset() (in module mrax.preprocessing.drift) linear_drift_correct_framestack() (in module mrax.preprocessing.drift) load_bruker_experiment() (in module mrax.io.bruker_import) load_bruker_study() (in module mrax.io.bruker_import) load_pulseq_experiment() (in module mrax.io.pulseq_import) load_study_results() (in module mrax.data_struct.storage) M make_AB_MT_n_model() (in module mrax.library.default_models) make_example_suite() (in module mrax.core.synthetic) make_exp_decay_model() (in module mrax.library.default_models) make_model_callable() (in module mrax.core.loss_builder) make_multipool_lorentzian_model() (in module mrax.library.default_models) make_optimizer() (in module mrax.opt.optimizers) make_regularizer_fn() (in module mrax.opt.regularizers) make_synthetic_study() (in module mrax.core.synthetic) make_t1_ir_model() (in module mrax.library.default_models) make_t1_vfa_model() (in module mrax.library.default_models) make_t1_vtr_model() (in module mrax.library.default_models) make_t2_se_model() (in module mrax.library.default_models) make_t2star_se_model() (in module mrax.library.default_models) make_wasabi_model() (in module mrax.library.default_models) make_zaiss_full_model() (in module mrax.library.default_models) match_spatial_mask() (in module mrax.analysis.roi) merged_observables() (mrax.data_struct.experiment.Experiment method) Model (class in mrax.data_struct.model) motion_correct_dataset() (in module mrax.preprocessing.motion) motion_correct_framestack() (in module mrax.preprocessing.motion) MRIEncodingOperator (class in mrax.reco.variational) N NormalizedMetadata (class in mrax.io.import_definitions) P pick_observable_for_frames() (in module mrax.data_struct.dimensions) pick_scan_by_type() (in module mrax.io.study_selection) pick_sensitivity_frame() (in module mrax.reco.utils) plan_study_fits() (in module mrax.core.study_runner) pocs_complete_kspace() (in module mrax.reco.utils) prepare_bruker_cartesian_kspace() (in module mrax.io.bruker_import) prepare_bruker_non_cartesian_kspace() (in module mrax.io.bruker_import) PulseqSequenceInfo (class in mrax.io.pulseq_import) Q Quantity (class in mrax.data_struct.quantity) R read_bruker_regrid_density() (in module mrax.io.bruker_import) read_bruker_regrid_trajectory() (in module mrax.io.bruker_import) read_pulseq() (in module mrax.io.pulseq_import) read_pulseq_sidecar_metadata() (in module mrax.io.pulseq_import) readout_crop_bounds() (in module mrax.reco.processing) reconstruct_bruker_cartesian_kspace() (in module mrax.io.bruker_import) reconstruct_ifft() (in module mrax.reco.variational) reconstruct_model_based() (in module mrax.reco.variational) reconstruct_regrid() (in module mrax.reco.variational) reconstruct_variational() (in module mrax.reco.variational) RecoPipeline (class in mrax.reco.pipeline) RecoState (class in mrax.reco.pipeline) register_experiment_to_reference() (in module mrax.preprocessing.motion) register_image() (in module mrax.preprocessing.motion) RegridApodizationCorrection (class in mrax.reco.variational) regularized_denoise() (in module mrax.preprocessing.denoise) release_memory() (in module mrax.core.runtime) require_quantity_dict() (in module mrax.data_struct.quantity) resample_image() (in module mrax.preprocessing.motion) reshape_dims_to_frames() (in module mrax.data_struct.dimensions) reshape_epi_samples() (in module mrax.io.import_definitions) reshape_frames_to_dims() (in module mrax.data_struct.dimensions) reshape_observables_to_dims() (in module mrax.data_struct.dimensions) reshape_raw_kspace() (in module mrax.io.import_definitions) Rigid2DTransform (class in mrax.preprocessing.drift) ROI (class in mrax.analysis.roi) run_batch_studies() (in module mrax.core.batch) run_fit() (in module mrax.core.loss_builder) S sanity_check() (mrax.data_struct.experiment.Experiment method) (mrax.data_struct.study.Study method) save_study_results() (in module mrax.data_struct.storage) select_experiment_frames() (in module mrax.data_struct.joint) Similarity2DTransform (class in mrax.preprocessing.drift) soft_threshold() (in module mrax.opt.ops) spatial_smoothness_penalty() (in module mrax.opt.regularizers) Study (class in mrax.data_struct.study) summarize_group_stats() (in module mrax.analysis.group) T total_variation_penalty() (in module mrax.opt.regularizers) TranslationTransform (class in mrax.preprocessing.drift) U unwrap_values() (in module mrax.data_struct.quantity)
