kwneuro.run

Recursively find and process dwi images and create hd_bet masks for each. Preserves directory structure in output.

Searches for input files: <ID>_dwi.nii.gz, <ID>.bval, <ID>.bvec

Produces output files: <ID>_mask.nii.gz

See kwneuro.masks.brain_extract_batch() for details.

Usage

gen_masks [OPTIONS]

Options

-i, --inputs <inputs>

Required Root directory to search for inputs.

-o, --outputs <outputs>

Required Root directory to write outputs.

Functions

gen_masks(→ None)

Recursively find and process dwi images and create hd_bet masks for each.

Module Contents

kwneuro.run.gen_masks(inputs: pathlib.Path, outputs: pathlib.Path) → None

Recursively find and process dwi images and create hd_bet masks for each. Preserves directory structure in output.

Searches for input files: <ID>_dwi.nii.gz, <ID>.bval, <ID>.bvec

Produces output files: <ID>_mask.nii.gz

See kwneuro.masks.brain_extract_batch() for details.