macapype.pipelines.register.create_register_NMT_pipe¶
- macapype.pipelines.register.create_register_NMT_pipe(params_template, params={}, name='register_NMT_pipe', NMT_version='v1.3')[source]¶
Description: Register template to anat with the script NMT_subject_align
Processing steps:
Bias correction (norm_intensity)
Deoblique (Refit with deoblique option)
NMT_subject_align (see
NMTSubjectAlignandNMTSubjectAlign2for explanations)apply it to tissues list_priors (NwarpApplyPriors and Allineate)
- Params:
norm_intensity (see N4BiasFieldCorrection for arguments)) - also available as indiv_params
NMT_version (default = 1.2; 1.3 is also accepted)
Inputs:
inputnode:
- T1:
T1 file name
- indiv_params:
dict with individuals parameters for some nodes
arguments:
- params_template:
dictionary of info about template
- params:
dictionary of node sub-parameters (from a json file)
- name:
pipeline name (default = “register_NMT_pipe”)
- NMT_version:
NMT version (default = 1.2); can be overwritten in params json
Outputs:
- norm_intensity.output_image:
filled mask after erode
- align_seg_csf.out_file:
csf template tissue in subject space
- align_seg_gm.out_file:
grey matter template tissue in subject space
- align_seg_wm.out_file:
white matter template tissue in subject space