morphologist.capsul.axon.brainorientation.BrainOrientation¶
BrainOrientation¶
Note
Type ‘BrainOrientation.help()’ for a full description of this process parameters.
Type ‘<BrainOrientation>.get_input_spec()’ for a full description of this process input trait types.
Type ‘<BrainOrientation>.get_output_spec()’ for a full description of this process output trait types.
Inputs¶
[Mandatory]
- nodes_activation: a legal value ([‘ControllerTrait’] - mandatory)
No description.
- select_AC_PC_Or_Normalization: a legal value ([‘Enum’] - mandatory)
No description.
- T1mri: a string or os.PathLike object ([‘File’] - mandatory)
No description.
- allow_flip_initial_MRI: a boolean ([‘Bool’] - mandatory)
No description.
[Optional]
- StandardACPC_Normalised: a legal value ([‘Enum’] - optional)
No description.
- StandardACPC_Anterior_Commissure: a legal value ([‘List_Float’] - optional)
No description.
- StandardACPC_Posterior_Commissure: a legal value ([‘List_Float’] - optional)
No description.
- StandardACPC_Interhemispheric_Point: a legal value ([‘List_Float’] - optional)
No description.
- StandardACPC_Left_Hemisphere_Point: a legal value ([‘List_Float’] - optional)
No description.
- StandardACPC_remove_older_MNI_normalization: a boolean ([‘Bool’] - optional)
No description.
- StandardACPC_older_MNI_normalization: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_select_Normalization_pipeline: a legal value ([‘Enum’] - optional)
No description.
- Normalization_commissures_coordinates: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_init_translation_origin: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeFSL_template: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_NormalizeFSL_alignment: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeFSL_set_transformation_in_source_volume: a boolean ([‘Bool’] - optional)
No description.
- Normalization_NormalizeFSL_allow_retry_initialization: a boolean ([‘Bool’] - optional)
No description.
- Normalization_NormalizeFSL_NormalizeFSL_cost_function: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeFSL_NormalizeFSL_search_cost_function: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeFSL_ConvertFSLnormalizationToAIMS_standard_template: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeSPM_NormalizeSPM: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeSPM_template: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_NormalizeSPM_allow_retry_initialization: a boolean ([‘Bool’] - optional)
No description.
- Normalization_NormalizeSPM_voxel_size: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeSPM_cutoff_option: an integer ([‘Int’] - optional)
No description.
- Normalization_NormalizeSPM_nbiteration: an integer ([‘Int’] - optional)
No description.
- Normalization_NormalizeSPM_ConvertSPMnormalizationToAIMS_target: a legal value ([‘Enum’] - optional)
No description.
- Normalization_NormalizeSPM_ConvertSPMnormalizationToAIMS_normalized_volume: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_NormalizeSPM_ConvertSPMnormalizationToAIMS_removeSource: a boolean ([‘Bool’] - optional)
No description.
- Normalization_NormalizeBaladin_template: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_NormalizeBaladin_set_transformation_in_source_volume: a boolean ([‘Bool’] - optional)
No description.
- Normalization_Normalization_AimsMIRegister_anatomical_template: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_Normalization_AimsMIRegister_mni_to_acpc: a string or os.PathLike object ([‘File’] - optional)
No description.
- Normalization_Normalization_AimsMIRegister_smoothing: a float ([‘Float’] - optional)
No description.
- TalairachFromNormalization_source_referential: a string or os.PathLike object ([‘File’] - optional)
No description.
- TalairachFromNormalization_normalized_referential: a string or os.PathLike object ([‘File’] - optional)
No description.
- TalairachFromNormalization_acpc_referential: a string or os.PathLike object ([‘File’] - optional)
No description.
- TalairachFromNormalization_transform_chain_ACPC_to_Normalized: a string or os.PathLike object ([‘File’] - optional)
No description.
Outputs¶
- commissure_coordinates: a string or os.PathLike object ([‘File (filename: input)’] - mandatory)
No description.
- reoriented_t1mri: a string or os.PathLike object ([‘File (filename: input)’] - mandatory)
No description.
- talairach_transformation: a string or os.PathLike object ([‘File (filename: input)’] - mandatory)
No description.
- Normalization_normalized: a string or os.PathLike object ([‘File (filename: input)’] - optional)
No description.
- Normalization_NormalizeFSL_NormalizeFSL_transformation_matrix: a string or os.PathLike object ([‘File (filename: input)’] - optional)
No description.
- Normalization_NormalizeSPM_spm_transformation: a string or os.PathLike object ([‘File (filename: input)’] - optional)
No description.
- Normalization_NormalizeBaladin_NormalizeBaladin_transformation_matrix: a string or os.PathLike object ([‘File (filename: input)’] - optional)
No description.
- Normalization_Normalization_AimsMIRegister_transformation_to_template: a string or os.PathLike object ([‘File (filename: input)’] - optional)
No description.
- Normalization_Normalization_AimsMIRegister_transformation_to_ACPC: a string or os.PathLike object ([‘File (filename: input)’] - optional)
No description.
Pipeline schema¶
