table of contents
LIPSIA     Transpose and resample (isotropic) a 3D dataset
visotrop
'visotrop' transposes a sagittal 3D dataset to axial direction, interpolates to an isotropic resolution of 1mm, and reslices in axial direction. The isotropic resolution can be selected by the user or is set by default to 1mm for images with a resolution >= 1mm. For images with a voxel size < 1mm in one dimension (clinical images like T2*), the output image is resampled to this best image resolution. 'visotrop' displays the old and the new voxel resolution for verification. Subject T1 images should be processed with the parameter '-reso 1' to force voxel size of 1mm in the brain database.

For images acquried in axial direction, the image sliceing is kept axial. In this case the user can select to reorder the slices from to to down. Default is this reordering.

visotrop offers 3 interpolation methods: linear, nearest neighbor, cubic spline. Linear is default.

By default images are flipped to the neurological (natural) convention.

Example:

visotrop -in subject1_image.v -out isotrop_image.v -reso -1

visotrop -in t2star-image.v -out isotrop_t2star.v

Input datasets are expected to be in VUByte format.

Input and output files can be specified on the command line or allowed to default to the standard input and output streams.

Parameters of 'visotrop':
-help
Prints usage information.
-in
Input file. Default: (none)
-out
Output file. Default: (none)
-reso
New voxel resolution in mm, def: -1 means min(1.0,"best source resolution"). Default: -1
-flip [ true | false ]
Whether to flip to natural convention. Default: true
-reorder [ true | false ]
Whether to reorder axial slices from axial source image. Default: true
-interpolation [ linear | NN | spline ]
Type of interpolation (0: linear, 1: nearest neighbor, 2: cubic spline). Default: linear


Max Planck Institute for Human Cognitive and Brain Sciences. Further Information: lipsia@cbs.mpg.de
Copyright © 2007 Max Planck Institute for Human Cognitive and Brain Sciences. All rights reserved.