unravel.cluster_stats.crop module

Use cstats_crop from UNRAVEL to load image, load bounding box, crop cluster, and save as .nii.gz.

Note

• -x and -z need to be provided if the resolution is not extracted from the image metadata.

• Use -a, -b, or -c to specify the crop method.

Usage with all clusters:

cstats_crop -i path/img.nii.gz -o path/output_img.nii.gz -a [-x $XY] [-z $Z] [-v]

Usage with a bounding box:

cstats_crop -i path/img.nii.gz -o path/output_img.nii.gz -b path/bbox.txt [-x $XY] [-z $Z] [-v]

Usage with a cluster ID:

cstats_crop -i path/img.nii.gz -o path/output_img.nii.gz -c 1 [-x $XY] [-z $Z] [-v]

unravel.cluster_stats.crop.parse_args()

unravel.cluster_stats.crop.save_cropped_img(img_cropped, xy_res, z_res, args, cluster=None)

unravel.cluster_stats.crop.main()