Usage¶
To use pyrobex in a project:
from pyrobex.robex import robex
Then you can skull-strip NIfTI images from ANTsPy or Nibabel, e.g.
import nibabel as nib
image = nib.load('path/to/image.nii.gz')
stripped, mask = robex(image)
Console script¶
ROBEX v1.2 T1-w Brain Extraction
usage: robex [-h] [-os OUTPUT_STRIPPED] [-om OUTPUT_MASK] [-s SEED] [-v]
t1_image
Required¶
- t1_image
path to T1-w image to be skull-stripped
Options¶
- -os, --output-stripped
path to output stripped image
- -om, --output-mask
path to output brain mask
- -s, --seed
random seed for reproducible results
Default: 0
- -v, --verbosity
increase output verbosity (e.g., -vv is more than -v)
Default: 0