def nlmeans_denoise(in_file, mask_file, out_file='', N=12):
""" Filepath interface to the nlmeans_denoise_img in pypes.preproc."""
import os.path as op
import nibabel as nib
from pypes.preproc import nlmeans_denoise_img
from pypes.utils import rename
den = nlmeans_denoise_img(nib.load(in_file), mask=nib.load(mask_file), N=N)
if not out_file:
out_file = rename(in_file, '_denoised')
den.to_filename(out_file)
return op.abspath(out_file)
def reslice(in_file, new_zooms=None, order=3, out_file=''):
"""
Performs regridding of an image to set isotropic voxel sizes using dipy.
"""
import os.path as op
import nibabel as nib
from pypes.preproc import reslice_img
from pypes.utils import rename
img = reslice_img(nib.load(in_file), new_zooms=new_zooms, order=order)
if not out_file:
out_file = rename(in_file, '_resliced')
img.to_filename(out_file)
return op.abspath(out_file)
