Anatomical Segmentation
AnatSegPipeline
Generating anatomical segmentation atlas from sMRI
__init__
Generating anatomical segmentation atlas from sMRI
Parameters:
| Name | Type | Description | Default |
|---|---|---|---|
subject
|
object
|
Subject object |
required |
session
|
object
|
Session object |
required |
output_path
|
str
|
Output directory |
required |
use_which_t1w
|
str
|
specific string to select T1w image, e.g. 'acq-highres'. If None, T1w image is not used |
'T1w'
|
methods
|
list
|
List of methods to use. Options include 'synthseg' and 'chpseg'. |
['synthseg', 'chpseg']
|
cpu_first
|
bool
|
Whether to use CPU first for SynthSeg (if available). |
False
|
extract_from
|
str
|
Path to extract results from |
None
|
**kwargs
|
Additional arguments |
{}
|
A more detailed description:
In this pipeline, we collect several anatomical segmentation methods for structural MRI (sMRI).