macapype.pipelines.full_pipelines.create_brain_segment_from_mask_pipe

macapype.pipelines.full_pipelines.create_brain_segment_from_mask_pipe(params_template, params={}, name='brain_segment_from_mask_pipe', NMT_version='v1.3', space='native')

Description: Segment T1 (using T2 for bias correction) and a previously computed mask with NMT Atlas and atropos segment.

Params:

• masked_correct_bias_pipe (see create_masked_correct_bias_pipe)

• register_NMT_pipe (see create_register_NMT_pipe)

• segment_atropos_pipe (see create_segment_atropos_pipe)

Inputs:

inputnode:

preproc_T1:

preprocessed T1 file name

preproc_T2:

preprocessed T2 file name

brain_mask:

a mask computed for the same T1/T2 images

indiv_params (opt):

dict with individuals parameters for some nodes

arguments:

params_template:

dictionary of template files

params:

dictionary of node sub-parameters (from a json file)

name:

pipeline name (default = “full_segment_pipe”)

Outputs: