Index _ | A | B | C | D | E | F | G | H | I | L | M | N | P | R | S | T _ __call__() (nifreeze.model.gpr.ExponentialKriging method) (nifreeze.model.gpr.SphericalKriging method) __len__() (nifreeze.data.base.BaseDataset method) A add_b0() (in module nifreeze.testing.simulations) advanced_clip() (in module nifreeze.data.filtering) affine (nifreeze.data.base.BaseDataset attribute) apply_affines() (in module nifreeze.data.utils) AverageDWIModel (class in nifreeze.model) (class in nifreeze.model.dmri) AverageModel (class in nifreeze.model) (class in nifreeze.model.base) B BaseDataset (class in nifreeze.data.base) BaseDWIModel (class in nifreeze.model.dmri) BaseModel (class in nifreeze.model.base) BOUNDS_A (in module nifreeze.model.gpr) BOUNDS_LAMBDA (in module nifreeze.model.gpr) brainmask (nifreeze.data.base.BaseDataset attribute) bvalue_iterator() (in module nifreeze.utils.iterators) bzero (nifreeze.data.dmri.DWI attribute) C calculate_sphere_pts() (in module nifreeze.viz.signals) centralsym_iterator() (in module nifreeze.utils.iterators) compute_dmri_convex_hull() (in module nifreeze.viz.signals) compute_pairwise_angles() (in module nifreeze.model.gpr) CONFIGURABLE_OPTIONS (in module nifreeze.model.gpr) create_diffusion_encoding_gradient_dirs() (in module nifreeze.testing.simulations) create_random_diffusivity_eigenvalues() (in module nifreeze.testing.simulations) create_random_polar_angles() (in module nifreeze.testing.simulations) create_random_polar_coordinates() (in module nifreeze.testing.simulations) create_single_fiber_evecs() (in module nifreeze.testing.simulations) create_single_shell_gradient_table() (in module nifreeze.testing.simulations) create_three_fiber_random_volume_fractions() (in module nifreeze.testing.simulations) create_two_fiber_dominant_random_volume_fractions() (in module nifreeze.testing.simulations) create_two_fiber_nondominant_random_volume_fractions() (in module nifreeze.testing.simulations) D datahdr (nifreeze.data.base.BaseDataset attribute) dataobj (nifreeze.data.base.BaseDataset attribute) DEFAULT_CLIP_PERCENTILE (in module nifreeze.model.dmri) DEFAULT_DTYPE (in module nifreeze.data.filtering) DEFAULT_HIGHB_THRESHOLD (in module nifreeze.model.dmri) DEFAULT_LOWB_THRESHOLD (in module nifreeze.model.dmri) DEFAULT_MAX_BVAL (in module nifreeze.model.dmri) DEFAULT_MAX_BVALUE (in module nifreeze.model.dmri) DEFAULT_MAX_S0 (in module nifreeze.model.dmri) DEFAULT_MIN_S0 (in module nifreeze.model.dmri) DEFAULT_MULTISHELL_BIN_COUNT_THR (in module nifreeze.model.dmri) DEFAULT_NUM_BINS (in module nifreeze.model.dmri) DEFAULT_TIMEFRAME_MIDPOINT_TOL (in module nifreeze.model.pet) diag() (nifreeze.model.gpr.ExponentialKriging method) (nifreeze.model.gpr.SphericalKriging method) DiffusionGPR (class in nifreeze.model.gpr) displacement_framewise() (in module nifreeze.registration.utils) displacements_within_mask() (in module nifreeze.registration.utils) DKIModel (class in nifreeze.model) (class in nifreeze.model.dmri) DTIModel (class in nifreeze.model) (class in nifreeze.model.dmri) DWI (class in nifreeze.data.dmri) E eddy_xfms (nifreeze.data.dmri.DWI attribute) estimate() (nifreeze.estimator.Estimator static method) Estimator (class in nifreeze.estimator) exponential_covariance() (in module nifreeze.model.gpr) ExponentialKriging (class in nifreeze.model.gpr) F find_shelling_scheme() (in module nifreeze.model.dmri) fit() (nifreeze.model.AverageDWIModel method) (nifreeze.model.AverageModel method) (nifreeze.model.base.AverageModel method) (nifreeze.model.base.BaseModel method) (nifreeze.model.base.TrivialModel method) (nifreeze.model.dmri.AverageDWIModel method) (nifreeze.model.dmri.BaseDWIModel method) (nifreeze.model.pet.PETModel method) (nifreeze.model.PETModel method) (nifreeze.model.TrivialModel method) frame_time (nifreeze.data.pet.PET attribute) from_filename() (nifreeze.data.base.BaseDataset class method) (nifreeze.data.dmri.DWI class method) (nifreeze.data.pet.PET class method) G generate_command() (in module nifreeze.registration.ants) get_filename() (nifreeze.data.base.BaseDataset method) get_query_vectors() (in module nifreeze.testing.simulations) GPModel (class in nifreeze.model) (class in nifreeze.model.dmri) gradients (nifreeze.data.dmri.DWI attribute) group_values() (in module nifreeze.testing.simulations) H hyperparameter_a (nifreeze.model.gpr.ExponentialKriging property) (nifreeze.model.gpr.SphericalKriging property) hyperparameter_l (nifreeze.model.gpr.ExponentialKriging property) (nifreeze.model.gpr.SphericalKriging property) I init() (nifreeze.model.base.ModelFactory static method) (nifreeze.model.ModelFactory static method) is_fitted (nifreeze.model.AverageModel property) (nifreeze.model.base.AverageModel property) (nifreeze.model.base.BaseModel property) (nifreeze.model.base.TrivialModel property) (nifreeze.model.pet.PETModel property) (nifreeze.model.PETModel property) (nifreeze.model.TrivialModel property) is_stationary() (nifreeze.model.gpr.ExponentialKriging method) (nifreeze.model.gpr.SphericalKriging method) L LBFGS_CONFIGURABLE_OPTIONS (in module nifreeze.model.gpr) linear_iterator() (in module nifreeze.utils.iterators) load() (in module nifreeze.data.base) (in module nifreeze.data.dmri) (in module nifreeze.data.pet) load_api() (in module nifreeze.utils.ndimage) lovo_split() (in module nifreeze.data.splitting) M main() (in module nifreeze.cli.run) ModelFactory (class in nifreeze.model) (class in nifreeze.model.base) ModelNotFittedError module nifreeze.cli nifreeze.cli.parser nifreeze.cli.run nifreeze.data nifreeze.data.base nifreeze.data.dmri nifreeze.data.filtering nifreeze.data.pet nifreeze.data.splitting nifreeze.data.utils nifreeze.estimator nifreeze.exceptions nifreeze.model nifreeze.model.base nifreeze.model.dmri nifreeze.model.gpr nifreeze.model.pet nifreeze.registration nifreeze.registration.ants nifreeze.registration.utils nifreeze.testing nifreeze.testing.simulations nifreeze.utils nifreeze.utils.iterators nifreeze.utils.ndimage nifreeze.viz nifreeze.viz.signals motion_affines (nifreeze.data.base.BaseDataset attribute) N nifreeze.cli module nifreeze.cli.parser module nifreeze.cli.run module nifreeze.data module nifreeze.data.base module nifreeze.data.dmri module nifreeze.data.filtering module nifreeze.data.pet module nifreeze.data.splitting module nifreeze.data.utils module nifreeze.estimator module nifreeze.exceptions module nifreeze.model module nifreeze.model.base module nifreeze.model.dmri module nifreeze.model.gpr module nifreeze.model.pet module nifreeze.registration module nifreeze.registration.ants module nifreeze.registration.utils module nifreeze.testing module nifreeze.testing.simulations module nifreeze.utils module nifreeze.utils.iterators module nifreeze.utils.ndimage module nifreeze.viz module nifreeze.viz.signals module NONGRADIENT_METHODS (in module nifreeze.model.gpr) P parse_args() (in module nifreeze.cli.parser) PET (class in nifreeze.data.pet) PETModel (class in nifreeze.model) (class in nifreeze.model.pet) plot_correlation() (in module nifreeze.viz.signals) plot_error() (in module nifreeze.viz.signals) plot_estimation_carpet() (in module nifreeze.viz.signals) plot_prediction_surface() (in module nifreeze.viz.signals) plot_signal_data() (in module nifreeze.viz.signals) plot_surface() (in module nifreeze.viz.signals) predict() (nifreeze.model.AverageDWIModel method) (nifreeze.model.AverageModel method) (nifreeze.model.base.AverageModel method) (nifreeze.model.base.BaseModel method) (nifreeze.model.base.TrivialModel method) (nifreeze.model.dmri.AverageDWIModel method) (nifreeze.model.dmri.BaseDWIModel method) (nifreeze.model.pet.PETModel method) (nifreeze.model.PETModel method) (nifreeze.model.TrivialModel method) R random_iterator() (in module nifreeze.utils.iterators) S serialize_dmri() (in module nifreeze.testing.simulations) serialize_dwi() (in module nifreeze.testing.simulations) serialize_gtab() (in module nifreeze.testing.simulations) set_transform() (nifreeze.data.base.BaseDataset method) (nifreeze.data.dmri.DWI method) simulate_multifiber_voxels() (in module nifreeze.testing.simulations) simulate_one_fiber_multivoxel() (in module nifreeze.testing.simulations) simulate_three_fiber_multivoxel() (in module nifreeze.testing.simulations) simulate_two_fiber_multivoxel() (in module nifreeze.testing.simulations) simulate_voxels() (in module nifreeze.testing.simulations) single_fiber_voxel() (in module nifreeze.testing.simulations) spherical_covariance() (in module nifreeze.model.gpr) SphericalKriging (class in nifreeze.model.gpr) SUPPORTED_OPTIMIZERS (in module nifreeze.model.gpr) T THETA_EPSILON (in module nifreeze.model.gpr) to_filename() (nifreeze.data.base.BaseDataset method) (nifreeze.data.dmri.DWI method) (nifreeze.data.pet.PET method) to_nifti() (nifreeze.data.base.BaseDataset method) (nifreeze.data.dmri.DWI method) total_duration (nifreeze.data.pet.PET attribute) TrivialModel (class in nifreeze.model) (class in nifreeze.model.base)