List of all items
Structs
- Grid
- bet::BetParams
- bet::evolution::BetParameters
- bet::evolution::BetParams
- bet::hdbet::HdBetParams
- bet::hdbet::Preprocessed
- bgremove::iharperella::HarperellaParams
- bgremove::ismv::IsmvParams
- bgremove::lbv::LbvParams
- bgremove::msmv::MsmvParams
- bgremove::pdf::PdfParams
- bgremove::resharp::ResharpParams
- bgremove::sdf::SdfParams
- bgremove::sharp::SharpParams
- bgremove::vsharp::VsharpParams
- crop::CropBox
- fieldmap::CoilCombinationResult
- fieldmap::LinearFitParams
- fieldmap::LinearFitResult
- fieldmap::PhaseOffsetParams
- geometry::AxialGrid
- geometry::AxialResampleParams
- geometry::GridMap
- geometry::ResampledComplex
- geometry::ResampledVolume
- geometry::SplitMix64
- homogeneity::HomogeneityParams
- inversion::admm::AdmmBuffers
- inversion::amp_pe::AmpPeParams
- inversion::amp_pe::DipoleOp
- inversion::amp_pe::GampCfg
- inversion::amp_pe::GampSnapshot
- inversion::amp_pe::GampState
- inversion::amp_pe::MixState
- inversion::fansi::FansiParams
- inversion::hdqsm::HdQsmParams
- inversion::ilsqr::IlsqrParams
- inversion::l1qsm::L1QsmParams
- inversion::medi::MediOpBuffers
- inversion::medi::MediParams
- inversion::medi::MediWorkspace
- inversion::ndi::NdiParams
- inversion::nltv::NltvParams
- inversion::qsmnet::QsmnetNorm
- inversion::rts::RtsParams
- inversion::tfi::TfiParams
- inversion::tgv::BoundingBox
- inversion::tgv::TgvParams
- inversion::tgv::TgvWorkspace
- inversion::tikhonov::TikhonovParams
- inversion::tiled::TileConfig
- inversion::tkd::TkdParams
- inversion::tv::TvParams
- inversion::whqsm::WhQsmParams
- io::NiftiData
- models::ModelSpec
- models::WeightFile
- models::onnx::OnnxModel
- models::onnx::OnnxPlan
- models::onnx::Tensor
- pipeline::config::BgRemovalConfig
- pipeline::config::BgRemovalResult
- pipeline::config::FieldMappingConfig
- pipeline::config::FieldMappingResult
- pipeline::config::InversionConfig
- pipeline::config::MaskSection
- pipeline::config::MaskingConfig
- pipeline::config::QsmPipelineConfig
- pipeline::config::ScanMetadata
- pipeline::config::SeparationConfig
- pipeline::separation::SeparationInputs
- pipeline::separation::SeparationResult
- relaxometry::R2EpgParams
- separation::chi_sep_ilsqr::ChiSepIlsqrParams
- separation::chi_sep_ilsqr::Ws
- separation::chi_sep_medi::ChiSepParams
- separation::chi_sep_medi::ChiSepWorkspace
- separation::chisepnet::ChiSepNetNorm
- separation::decompose::DecomposeParams
- separation::decompose::LmScratch
- separation::decompose::Scratch
- separation::hc_chisep::AnchoredFitter
- separation::hc_chisep::HcChisepParams
- separation::r2star_qsm::R2starQsmParams
- separation::susep_net::SusepNetNorm
- separation::wavesep::WaveSepParams
- swi::SwiParams
- unwrap::romeo::RomeoParams
Enums
- fieldmap::B0WeightType
- inversion::tikhonov::Regularization
- models::Framework
- models::ModelStage
- models::WeightStatus
- models::download::DownloadError
- models::onnx::OnnxError
- pipeline::config::B0EstimationMethod
- pipeline::config::BgRemovalAlgorithm
- pipeline::config::InversionAlgorithm
- pipeline::config::MaskOp
- pipeline::config::MaskThresholdMethod
- pipeline::config::MaskingInput
- pipeline::config::OrientationSupport
- pipeline::config::PipelineError
- pipeline::config::QsmReference
- pipeline::config::SeparationAlgorithm
- pipeline::config::UnwrappingAlgorithm
- swi::PhaseScaling
- unwrap::UnwrapMethod
- unwrap::romeo::RomeoWeightType
Macros
Functions
- bet::evolution::estimate_brain_parameters
- bet::evolution::evolution_pass
- bet::evolution::fill_holes
- bet::evolution::percentile
- bet::evolution::run_bet
- bet::evolution::sample_intensities_fsl
- bet::evolution::sample_intensity
- bet::evolution::surface_to_mask
- bet::hdbet::flip3
- bet::hdbet::for_each_patch_row
- bet::hdbet::for_each_slice
- bet::hdbet::gaussian_importance
- bet::hdbet::hd_bet
- bet::hdbet::nonzero_bbox
- bet::hdbet::postprocess
- bet::hdbet::predict_logits
- bet::hdbet::preprocess
- bet::hdbet::resample_nnunet
- bet::hdbet::separate_z_axis
- bet::hdbet::slice_ranges
- bet::hdbet::window_steps
- bet::icosphere::create_icosphere
- bet::icosphere::subdivide_icosphere
- bet::mesh::build_neighbor_matrix
- bet::mesh::compute_mean_edge_length
- bet::mesh::compute_mean_edge_length_mm
- bet::mesh::compute_vertex_normals
- bet::mesh::self_intersection_heuristic
- bet::mesh::vertex_distance
- bet::run_bet
- bgremove::bfrnet::bfrnet
- bgremove::iharperella::apply_inv_lap
- bgremove::iharperella::apply_smv
- bgremove::iharperella::cg_solve_masked
- bgremove::iharperella::compute_laplacian_eigenvalues
- bgremove::iharperella::compute_smv_fft
- bgremove::iharperella::harperella
- bgremove::iharperella::iharperella
- bgremove::iharperella::iharperella_with_weights
- bgremove::iharperella::prepare_laplacian
- bgremove::iharperella::solve_poisson
- bgremove::ismv::erode_mask_f64
- bgremove::ismv::ismv
- bgremove::ismv::ismv_core
- bgremove::lbv::lbv
- bgremove::lbv::lbv_core
- bgremove::msmv::msmv
- bgremove::pdf::apply_a
- bgremove::pdf::apply_at
- bgremove::pdf::pdf
- bgremove::pdf::pdf_core
- bgremove::resharp::apply_ht_h
- bgremove::resharp::resharp
- bgremove::sdf::convolve_1d_direction
- bgremove::sdf::convolve_1d_direction_sigma
- bgremove::sdf::gaussian_smooth_3d_masked_f64
- bgremove::sdf::gaussian_smooth_3d_with_filter_size
- bgremove::sdf::sdf
- bgremove::sdf::sdf_curvature
- bgremove::sdf::sdf_simple
- bgremove::sharp::sharp
- bgremove::sharp::sharp_core
- bgremove::smv::smv
- bgremove::vsharp::vsharp
- bgremove::vsharp::vsharp_radii
- bgremove::vsharp::vsharp_with_radii
- crop::crop_box_for_mask
- crop::crop_volume
- crop::crop_volume_with
- crop::fft_pad_box
- crop::margin_voxels
- crop::next_fft_friendly_size
- crop::uncrop_volume
- denoise::mppca_denoise
- fieldmap::bipolar_correction
- fieldmap::calculate_b0_weighted
- fieldmap::field_to_hz
- fieldmap::gaussian_box_sizes
- fieldmap::mcpc3ds_combine
- fieldmap::multi_echo_linear_fit
- fieldmap::nan_box_smooth_3d
- fieldmap::nan_box_smooth_3d_phase
- fieldmap::phase_offset_removal
- geometry::axial_grid_for
- geometry::b0_angle_from_affine
- geometry::b0_direction_from_affine
- geometry::obliquity_axes_from_affine
- geometry::obliquity_from_affine
- geometry::resample_complex_onto
- geometry::resample_complex_to_axial
- geometry::resample_mask_onto
- geometry::resample_mask_to_axial
- geometry::resample_onto
- geometry::resample_to_axial
- geometry::seed_from_slice
- geometry::trilinear_sample
- geometry::voxel_sizes_from_affine
- geometry::world_to_voxel
- homogeneity::get_sensitivity
- homogeneity::makehomogeneous
- inversion::admm::admm_step
- inversion::admm::prepare_admm_spectral
- inversion::admm::prepare_fansi_spectral
- inversion::amp_pe::a_qsm_mult
- inversion::amp_pe::a_qsm_multtr_real
- inversion::amp_pe::amp_pe
- inversion::amp_pe::build_wave_mask
- inversion::amp_pe::chi_l2_seed
- inversion::amp_pe::crop_volume
- inversion::amp_pe::data_fit
- inversion::amp_pe::frob_qsm_sq
- inversion::amp_pe::gamp_awgn
- inversion::amp_pe::gamp_awgn_mix
- inversion::amp_pe::input_function
- inversion::amp_pe::input_parameter_est
- inversion::amp_pe::linearize
- inversion::amp_pe::mix_output_function
- inversion::amp_pe::mix_output_parameter_est
- inversion::amp_pe::note_guard_firing
- inversion::amp_pe::pad_volume
- inversion::amp_pe::var
- inversion::amp_pe::var_complex
- inversion::amp_pe::wavelet_block
- inversion::autoqsm::autoqsm
- inversion::autoqsm::blend
- inversion::autoqsm::ri
- inversion::fansi::fansi
- inversion::fansi::nltgv
- inversion::fansi::nltv
- inversion::fansi::norm2
- inversion::fansi::spectral_mul_assign
- inversion::hdqsm::apply_dipole
- inversion::hdqsm::hdqsm
- inversion::hdqsm::norm2
- inversion::hdqsm::percent_update
- inversion::ilsqr::axpy
- inversion::ilsqr::axpy_complex
- inversion::ilsqr::compute_laplacian
- inversion::ilsqr::dipole_kspace_weights_ilsqr
- inversion::ilsqr::fastqsm_step
- inversion::ilsqr::fgrad_masked
- inversion::ilsqr::gradient_weights_component
- inversion::ilsqr::gradient_weights_ilsqr
- inversion::ilsqr::ilsqr
- inversion::ilsqr::lap1_axis
- inversion::ilsqr::lap1_backward
- inversion::ilsqr::lap1_forward
- inversion::ilsqr::laplacian_weights_ilsqr
- inversion::ilsqr::lsmr
- inversion::ilsqr::lsqr
- inversion::ilsqr::lsqr_complex
- inversion::ilsqr::lsqr_step
- inversion::ilsqr::multiply_elementwise
- inversion::ilsqr::norm
- inversion::ilsqr::norm_complex
- inversion::ilsqr::prctile
- inversion::ilsqr::scale_complex_inplace
- inversion::ilsqr::scale_inplace
- inversion::ilsqr::sign_array
- inversion::ilsqr::susceptibility_artifacts_step
- inversion::iqfm::iqfm
- inversion::iqfm::iqfm_multi_echo
- inversion::iqsm::iqsm
- inversion::iqsm::iqsm_multi_echo
- inversion::iqsm::iqsm_with
- inversion::iqsm::sphere_erode
- inversion::iqsm_plus::iqsm_plus
- inversion::iqsm_plus::iqsm_plus_multi_echo
- inversion::iqsm_plus::iqsm_plus_with
- inversion::ir2qsm::ir2qsm
- inversion::ir2qsm::ir2qsm_tiled
- inversion::l1qsm::l1qsm
- inversion::l1qsm::norm2
- inversion::lpcnn::dipole_apply
- inversion::lpcnn::lpcnn
- inversion::lpcnn::lpcnn_dipole_kernel
- inversion::lpcnn::lpcnn_tiled
- inversion::lpcnn::run_gen
- inversion::medi::apply_dipole_conv
- inversion::medi::apply_medi_operator_core
- inversion::medi::apply_smv_kernel_ws
- inversion::medi::bdiv_periodic_inplace_f32
- inversion::medi::cg_solve_medi
- inversion::medi::compute_rhs_inplace
- inversion::medi::dataterm_mask_f32
- inversion::medi::fgrad_linext_f32
- inversion::medi::fgrad_linext_inplace_f32
- inversion::medi::fgrad_periodic_inplace_f32
- inversion::medi::gradient_mask_f32
- inversion::medi::medi
- inversion::modl_qsm::a_op
- inversion::modl_qsm::ah_op
- inversion::modl_qsm::dipole_apply
- inversion::modl_qsm::modl_dipole_kernel
- inversion::modl_qsm::modl_qsm
- inversion::modl_qsm::modl_qsm_tiled
- inversion::modl_qsm::run_prior
- inversion::ndi::apply_dipole
- inversion::ndi::ndi
- inversion::nextqsm::dipole_forward
- inversion::nextqsm::dipole_kernel_shifted
- inversion::nextqsm::l2
- inversion::nextqsm::nextqsm
- inversion::nextqsm::nextqsm_padded
- inversion::nextqsm::nextqsm_tiled
- inversion::nextqsm::run_unet
- inversion::nltv::nltv
- inversion::qsmgan::qsmgan
- inversion::qsmnet::qsmnet
- inversion::qsmnet::qsmnet_tiled
- inversion::rts::rts
- inversion::tfi::cg_solve_tfi
- inversion::tfi::tfi
- inversion::tgv::apply_laplacian_inplace
- inversion::tgv::apply_stencil
- inversion::tgv::compute_dipole_stencil
- inversion::tgv::compute_laplacian
- inversion::tgv::compute_oblique_stencil
- inversion::tgv::compute_operator_norm_sqr
- inversion::tgv::compute_phase_laplacian
- inversion::tgv::compute_relative_change
- inversion::tgv::dst1
- inversion::tgv::dst3d
- inversion::tgv::dst_sin_table
- inversion::tgv::extract_subvolume
- inversion::tgv::frobenius_norm
- inversion::tgv::get_default_alpha
- inversion::tgv::get_default_iterations
- inversion::tgv::grad_norm_sq
- inversion::tgv::insert_subvolume
- inversion::tgv::norm3
- inversion::tgv::project_linf3
- inversion::tgv::project_linf6
- inversion::tgv::solve_symmetric_pseudoinverse
- inversion::tgv::tgv_qsm
- inversion::tikhonov::tikhonov
- inversion::tiled::tile_patch_size
- inversion::tiled::tiled_field_inversion
- inversion::tiled::tiled_scatter
- inversion::tiled::tiled_volume_algorithm
- inversion::tkd::tkd
- inversion::tkd::tsvd
- inversion::tv::tv_admm
- inversion::whqsm::norm
- inversion::whqsm::whqsm
- inversion::xqsm::xqsm
- inversion::xqsm::xqsm_tiled
- io::get_affine
- io::get_header_info
- io::is_gzip
- io::load_nifti
- io::load_nifti_4d
- io::read_nifti_dims
- io::read_nifti_file
- io::save_nifti
- io::save_nifti_gz
- io::save_nifti_to_file
- mask::apply_mask_zero
- mask::create_sphere_mask
- mask::dilate_mask
- mask::erode_mask
- mask::fill_holes
- mask::morphological_close
- mask::otsu_threshold
- models::all_models
- models::all_weight_bytes
- models::cache_dir
- models::cache_path
- models::download::checksum_ok
- models::download::ensure_file
- models::download::ensure_file_with_progress
- models::download::ensure_model
- models::download::http_get
- models::download::http_get_once
- models::download::primary_bytes
- models::download::sha256_hex
- models::find_model
- models::onnx::run_threaded
- models::onnx::tract_executor
- models::prefetch_with_progress
- models::primary_weight
- models::primary_weight_bytes
- models::registry::all_models
- models::registry::find_model
- models::registry::pending_onnx
- models::resolve_local
- models::weight_file_bytes
- models::weights
- pipeline::bg_removal::run_bfrnet
- pipeline::bg_removal::run_bg_removal
- pipeline::field_mapping::field_mapping_direct
- pipeline::field_mapping::field_mapping_single_echo
- pipeline::field_mapping::field_mapping_with_offset
- pipeline::field_mapping::run_field_mapping
- pipeline::field_mapping::unwrap_single
- pipeline::inversion::run_autoqsm
- pipeline::inversion::run_dipole_inversion
- pipeline::inversion::run_iqfm
- pipeline::inversion::run_iqsm
- pipeline::inversion::run_iqsm_plus
- pipeline::inversion::run_ir2qsm
- pipeline::inversion::run_lpcnn
- pipeline::inversion::run_modl_qsm
- pipeline::inversion::run_nextqsm
- pipeline::inversion::run_qsmgan
- pipeline::inversion::run_qsmnet
- pipeline::inversion::run_tgv
- pipeline::inversion::run_xqsm
- pipeline::masking::apply_mask_ops
- pipeline::masking::build_mask_section
- pipeline::masking::resolve_masking_input
- pipeline::masking::run_hd_bet
- pipeline::masking::run_masking
- pipeline::phase_utils::dilate_mask
- pipeline::phase_utils::erode_mask
- pipeline::phase_utils::hz_to_ppm
- pipeline::phase_utils::rads_to_ppm
- pipeline::phase_utils::rss_combine
- pipeline::phase_utils::scale_phase_to_pi
- pipeline::qsmart::run_qsmart
- pipeline::referencing::apply_reference
- pipeline::separation::need
- pipeline::separation::run_chi_sepnet
- pipeline::separation::run_separation
- pipeline::separation::run_susep_net
- r2star::r2star_arlo
- r2star::t2star_from_r2star
- r2star::use_arlo
- relaxometry::epg_cpmg_echoes
- relaxometry::r2_epg
- relaxometry::r2prime
- separation::chi_sep_ilsqr::apply_operator
- separation::chi_sep_ilsqr::cg_solve
- separation::chi_sep_ilsqr::chi_sep_ilsqr
- separation::chi_sep_ilsqr::chi_sep_ilsqr_core
- separation::chi_sep_ilsqr::irls_weights
- separation::chi_sep_medi::apply_chisep_operator
- separation::chi_sep_medi::cg_solve_chisep
- separation::chi_sep_medi::chi_sep_medi
- separation::chi_sep_medi::chi_sep_medi_core
- separation::chisepnet::chisepnet
- separation::decompose::cexp_decay
- separation::decompose::clog
- separation::decompose::decompose
- separation::decompose::dot
- separation::decompose::dsc_model
- separation::decompose::fit_voxel
- separation::decompose::lm_bounded
- separation::decompose::psc_model
- separation::decompose::recon_phase
- separation::decompose::signal_model
- separation::decompose::solve_small
- separation::decompose::unwrap_near
- separation::hc_chisep::finish
- separation::hc_chisep::gather_normalised
- separation::hc_chisep::gaussian_filter_3d
- separation::hc_chisep::hc_chisep
- separation::hc_chisep::hc_compartment_freqs
- separation::hc_chisep::hc_wm_r2prime
- separation::hc_chisep::hc_wm_se_signal
- separation::hc_chisep::hc_wm_signal_mag
- separation::hc_chisep::median
- separation::hc_chisep::median_filter_3
- separation::hc_chisep::mono_sse
- separation::hc_chisep::percentile
- separation::hc_chisep::reflect_index
- separation::hc_chisep::smooth_stack
- separation::hc_chisep::to_echo_major
- separation::hc_chisep::volmap
- separation::r2star_qsm::fit_r2star_weighted_loglinear
- separation::r2star_qsm::r2star_qsm
- separation::r2star_qsm::r2star_qsm_from_magnitude
- separation::susep_net::susep_net
- separation::wavesep::pad3d
- separation::wavesep::pad_spec
- separation::wavesep::prox_wavelet_l1
- separation::wavesep::soft_threshold
- separation::wavesep::unpad3d
- separation::wavesep::wavesep
- swi::calculate_swi
- swi::create_mip
- swi::create_phase_mask
- swi::highpass_filter
- swi::negative_range
- swi::positive_range
- swi::rescale
- swi::softplus_scaling
- unring::gibbs_unring
- unring::gibbs_unring_masked
- unring::gibbs_unring_volume
- unwrap::laplacian::laplacian_unwrap
- unwrap::laplacian::laplacian_unwrap_bfr
- unwrap::laplacian::solve_poisson_dct
- unwrap::laplacian::solve_poisson_dirichlet_roi
- unwrap::laplacian::wrap
- unwrap::laplacian::wrapped_laplacian_neumann
- unwrap::laplacian::wrapped_laplacian_periodic
- unwrap::romeo::calculate_weights_bestpath
- unwrap::romeo::calculate_weights_romeo
- unwrap::romeo::calculate_weights_romeo_configurable
- unwrap::romeo::calculate_weights_romeo_with_flags
- unwrap::romeo::calculate_weights_single_echo
- unwrap::romeo::compute_weights_from_params
- unwrap::romeo::correct_global_offset
- unwrap::romeo::correct_multi_echo_wraps
- unwrap::romeo::correct_regions
- unwrap::romeo::find_seed_point
- unwrap::romeo::idx3d
- unwrap::romeo::merge_regions_post
- unwrap::romeo::percentile_95
- unwrap::romeo::phase_linearity_edge
- unwrap::romeo::phase_linearity_triplet
- unwrap::romeo::rescale_weight
- unwrap::romeo::temporal_uncertain_rewrap
- unwrap::romeo::unwrap_individual
- unwrap::romeo::unwrap_romeo
- unwrap::romeo::unwrap_romeo_multi_echo
- unwrap::romeo::unwrap_template
- unwrap::romeo::unwrap_voxel
- unwrap::romeo::voxel_quality_romeo
- unwrap::romeo::wrap_angle
Type Aliases
Constants
- bet::evolution::MAX_PASSES
- bet::evolution::SELF_INTERSECTION_THRESHOLD
- bet::hdbet::PATCH_DIVISOR
- bet::hdbet::TARGET_SPACING
- bgremove::msmv::GYRO_MHZ_T
- inversion::amp_pe::DAMP_DIVERGE_FACTOR
- inversion::amp_pe::DAMP_GROW
- inversion::amp_pe::DAMP_MIN
- inversion::amp_pe::DAMP_SHRINK
- inversion::amp_pe::EPS
- inversion::amp_pe::MAX_BACKTRACKS
- inversion::amp_pe::PARAM_CHUNK
- inversion::autoqsm::IN
- inversion::autoqsm::MARGIN
- inversion::autoqsm::OUT
- inversion::autoqsm::OVERLAP
- inversion::autoqsm::SHIFT
- inversion::ir2qsm::SIZE_DIVISOR
- inversion::lpcnn::ITER_NUM
- inversion::lpcnn::LPCNN_ALPHA
- inversion::lpcnn::LPCNN_GT_MEAN
- inversion::lpcnn::LPCNN_GT_STD
- inversion::modl_qsm::MODL_ALPHA
- inversion::modl_qsm::MODL_MEAN
- inversion::modl_qsm::MODL_STD
- inversion::modl_qsm::NUM_ITER
- inversion::nextqsm::NEXTQSM_LAMBDAS
- inversion::qsmgan::INPUT_SCALE
- inversion::qsmgan::IPS
- inversion::qsmgan::OPS
- inversion::qsmgan::OUTPUT_SCALE
- models::download::MAX_ATTEMPTS
- models::registry::MODELS
- pipeline::inversion::IQSM_ERODED_RAD
- pipeline::inversion::IQSM_PHASE_SIGN
- pipeline::separation::GAMMA_HZ_PER_T
- separation::chi_sep_ilsqr::TWO_PI
- separation::chisepnet::PD
- separation::chisepnet::PH
- separation::chisepnet::PW
- separation::decompose::GAMMA
- separation::decompose::LM_MAX_N
- separation::decompose::TAU
- separation::hc_chisep::CHI_A
- separation::hc_chisep::CHI_GATE_C
- separation::hc_chisep::CHI_GATE_S
- separation::hc_chisep::CHI_I
- separation::hc_chisep::CHI_NEG_REF
- separation::hc_chisep::E_EXCH
- separation::hc_chisep::F_AXON
- separation::hc_chisep::GAMMA_BAR
- separation::hc_chisep::G_RATIO
- separation::hc_chisep::K_CHI
- separation::hc_chisep::LAM
- separation::hc_chisep::MWF_MAX
- separation::hc_chisep::MWF_MIN
- separation::hc_chisep::MWF_REF
- separation::hc_chisep::NCONV_SIGMA
- separation::hc_chisep::NM
- separation::hc_chisep::NO_BEAT_FRAC
- separation::hc_chisep::NT
- separation::hc_chisep::SMOOTH_CLS
- separation::hc_chisep::SMOOTH_FIT
- separation::hc_chisep::T2_A
- separation::hc_chisep::T2_E
- separation::hc_chisep::T2_M
- separation::hc_chisep::W_CENTER
- separation::hc_chisep::W_SCALE
- separation::hc_chisep::W_SUPPORT
- unwrap::romeo::TWO_PI