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