Index Symbols | A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | R | S | T | U | V | W Symbols --inputs gen_masks command line option --outputs gen_masks command line option -i gen_masks command line option -o gen_masks command line option A affine (kwneuro.resource.InMemoryVolumeResource attribute) apply() (kwneuro.reg.TransformResource method) array (kwneuro.resource.InMemoryBvalResource attribute) (kwneuro.resource.InMemoryBvecResource attribute) (kwneuro.resource.InMemoryVolumeResource attribute) average_volumes() (in module kwneuro.build_template) avg_signal (kwneuro.resource.InMemoryResponseFunctionResource attribute) B brain_extract() (in module kwneuro.masks) brain_extract_dwi_batch() (in module kwneuro.masks) brain_extract_structural_batch() (in module kwneuro.masks) build_multi_metric_template() (in module kwneuro.build_template) build_template() (in module kwneuro.build_template) bval (kwneuro.dwi.Dwi attribute) BvalResource (class in kwneuro.resource) bvec (kwneuro.dwi.Dwi attribute) BvecResource (class in kwneuro.resource) C Cache (class in kwneuro) (class in kwneuro.cache) cache_dir (kwneuro.Cache attribute) (kwneuro.cache.Cache attribute) cacheable() (in module kwneuro) (in module kwneuro.cache) CacheSpec (class in kwneuro) (class in kwneuro.cache) CombatEstimates (class in kwneuro.harmonize) combine_csd_peaks_to_vector_volume() (in module kwneuro.csd) combine_response_functions() (in module kwneuro.csd) compute_csd_fods() (in module kwneuro.csd) compute_csd_peaks() (in module kwneuro.csd) compute_mean_b0() (kwneuro.dwi.Dwi method) concatenate() (kwneuro.dwi.Dwi static method) correct_bias() (kwneuro.structural.StructuralImage method) (kwneuro.StructuralImage method) create_estimate_volume_resource() (in module kwneuro.util) D deep_equal_allclose() (in module kwneuro.util) denoise() (kwneuro.dwi.Dwi method) denoise_dwi() (in module kwneuro.denoise) directions (kwneuro.noddi.Noddi attribute) Dti (class in kwneuro.dti) Dwi (class in kwneuro.dwi) E ensure_output_dir() (in module kwneuro.util) estimate_dti() (kwneuro.dti.Dti static method) (kwneuro.dwi.Dwi method) estimate_noddi() (kwneuro.dwi.Dwi method) (kwneuro.noddi.Noddi static method) estimate_response_function() (in module kwneuro.csd) estimates (kwneuro.harmonize.CombatEstimates attribute) extract_brain() (kwneuro.dwi.Dwi method) (kwneuro.structural.StructuralImage method) (kwneuro.StructuralImage method) extract_tractseg() (in module kwneuro.tractseg) F files (kwneuro.cache.CacheSpec attribute) (kwneuro.CacheSpec attribute) force (kwneuro.Cache attribute) (kwneuro.cache.Cache attribute) from_ants_image() (kwneuro.resource.InMemoryVolumeResource static method) from_dipy_object() (kwneuro.resource.InMemoryResponseFunctionResource static method) from_prolate_tensor() (kwneuro.resource.InMemoryResponseFunctionResource static method) FslBvalResource (class in kwneuro.io) FslBvecResource (class in kwneuro.io) fwf (kwneuro.noddi.Noddi property) G gen_masks command line option --inputs --outputs -i -o gen_masks() (in module kwneuro.run) get() (kwneuro.io.FslBvalResource method) (kwneuro.io.FslBvecResource method) (kwneuro.io.JsonResponseFunctionResource method) (kwneuro.resource.BvalResource method) (kwneuro.resource.BvecResource method) (kwneuro.resource.InMemoryBvalResource method) (kwneuro.resource.InMemoryBvecResource method) (kwneuro.resource.InMemoryResponseFunctionResource method) (kwneuro.resource.ResponseFunctionResource method) get_affine() (kwneuro.io.NiftiVolumeResource method) (kwneuro.resource.InMemoryVolumeResource method) (kwneuro.resource.VolumeResource method) get_array() (kwneuro.io.NiftiVolumeResource method) (kwneuro.resource.InMemoryVolumeResource method) (kwneuro.resource.VolumeResource method) get_dipy_object() (kwneuro.io.JsonResponseFunctionResource method) (kwneuro.resource.InMemoryResponseFunctionResource method) (kwneuro.resource.ResponseFunctionResource method) get_eig() (kwneuro.dti.Dti method) get_fa_md() (kwneuro.dti.Dti method) get_gtab() (kwneuro.dwi.Dwi method) get_metadata() (kwneuro.io.NiftiVolumeResource method) (kwneuro.resource.InMemoryVolumeResource method) (kwneuro.resource.VolumeResource method) get_modulated_ndi_odi() (kwneuro.noddi.Noddi method) H harmonize_volumes() (in module kwneuro.harmonize) I info (kwneuro.harmonize.CombatEstimates attribute) initialize_from_ants() (kwneuro.reg.TransformResource static method) InMemoryBvalResource (class in kwneuro.resource) InMemoryBvecResource (class in kwneuro.resource) InMemoryResponseFunctionResource (class in kwneuro.resource) InMemoryVolumeResource (class in kwneuro.resource) is_cached() (kwneuro.Cache method) (kwneuro.cache.Cache method) is_forced() (kwneuro.Cache method) (kwneuro.cache.Cache method) is_loaded (kwneuro.io.FslBvalResource attribute) (kwneuro.io.FslBvecResource attribute) (kwneuro.io.JsonResponseFunctionResource attribute) (kwneuro.io.NiftiVolumeResource attribute) (kwneuro.resource.InMemoryBvalResource attribute) (kwneuro.resource.InMemoryBvecResource attribute) (kwneuro.resource.InMemoryResponseFunctionResource attribute) (kwneuro.resource.InMemoryVolumeResource attribute) (kwneuro.resource.Resource attribute) J JsonResponseFunctionResource (class in kwneuro.io) K kwneuro module kwneuro.build_template module kwneuro.cache module kwneuro.csd module kwneuro.denoise module kwneuro.dti module kwneuro.dwi module kwneuro.harmonize module kwneuro.io module kwneuro.masks module kwneuro.noddi module kwneuro.reg module kwneuro.resource module kwneuro.run module kwneuro.structural module kwneuro.tractseg module kwneuro.util module L load (kwneuro.cache.CacheSpec attribute) (kwneuro.CacheSpec attribute) load() (kwneuro.dti.Dti method) (kwneuro.dwi.Dwi method) (kwneuro.io.FslBvalResource method) (kwneuro.io.FslBvecResource method) (kwneuro.io.JsonResponseFunctionResource method) (kwneuro.io.NiftiVolumeResource method) (kwneuro.noddi.Noddi method) (kwneuro.resource.BvalResource method) (kwneuro.resource.BvecResource method) (kwneuro.resource.InMemoryVolumeResource method) (kwneuro.resource.Resource method) (kwneuro.resource.ResponseFunctionResource method) (kwneuro.resource.VolumeResource method) (kwneuro.structural.StructuralImage method) (kwneuro.StructuralImage method) M matrices (kwneuro.reg.TransformResource property) metadata (kwneuro.resource.InMemoryVolumeResource attribute) module kwneuro kwneuro.build_template kwneuro.cache kwneuro.csd kwneuro.denoise kwneuro.dti kwneuro.dwi kwneuro.harmonize kwneuro.io kwneuro.masks kwneuro.noddi kwneuro.reg kwneuro.resource kwneuro.run kwneuro.structural kwneuro.tractseg kwneuro.util N ndi (kwneuro.noddi.Noddi property) NiftiVolumeResource (class in kwneuro.io) Noddi (class in kwneuro.noddi) normalize_path() (in module kwneuro.util) O odi (kwneuro.noddi.Noddi property) P parcellate() (kwneuro.structural.StructuralImage method) (kwneuro.StructuralImage method) path (kwneuro.io.FslBvalResource attribute) (kwneuro.io.FslBvecResource attribute) (kwneuro.io.JsonResponseFunctionResource attribute) (kwneuro.io.NiftiVolumeResource attribute) path_in (kwneuro.io.FslBvalResource attribute) (kwneuro.io.FslBvecResource attribute) (kwneuro.io.JsonResponseFunctionResource attribute) (kwneuro.io.NiftiVolumeResource attribute) PathLike (in module kwneuro.util) R register_dwi_to_structural() (in module kwneuro.reg) register_volumes() (in module kwneuro.reg) Resource (class in kwneuro.resource) ResponseFunctionResource (class in kwneuro.resource) S save (kwneuro.cache.CacheSpec attribute) (kwneuro.CacheSpec attribute) save() (kwneuro.dti.Dti method) (kwneuro.dwi.Dwi method) (kwneuro.io.FslBvalResource static method) (kwneuro.io.FslBvecResource static method) (kwneuro.io.JsonResponseFunctionResource static method) (kwneuro.io.NiftiVolumeResource static method) (kwneuro.noddi.Noddi method) (kwneuro.reg.TransformResource method) (kwneuro.structural.StructuralImage method) (kwneuro.StructuralImage method) segment_tissues() (kwneuro.structural.StructuralImage method) (kwneuro.StructuralImage method) sh_coeffs (kwneuro.resource.InMemoryResponseFunctionResource attribute) status() (kwneuro.Cache method) (kwneuro.cache.Cache method) step_name (kwneuro.cache.CacheSpec attribute) (kwneuro.CacheSpec attribute) StructuralImage (class in kwneuro) (class in kwneuro.structural) subsample_dwi() (in module kwneuro.dwi) subsample_volume() (in module kwneuro.util) T T (in module kwneuro.cache) to_ants_image() (kwneuro.resource.InMemoryVolumeResource method) TransformResource (class in kwneuro.reg) U update_volume_metadata() (in module kwneuro.util) V volume (kwneuro.dti.Dti attribute) (kwneuro.dwi.Dwi attribute) (kwneuro.noddi.Noddi attribute) (kwneuro.structural.StructuralImage attribute) (kwneuro.StructuralImage attribute) VolumeResource (class in kwneuro.resource) W warp_fields (kwneuro.reg.TransformResource property)