Parsing ... Usage 1: A script to align a full coverage T1 weighted non-oblique dataset
to match a partial coverage T1 weighted non-oblique dataset Alignment is done with a rotation and shift (6 parameters) transform only.Script is still in testing phase
@align_partial_oblique [options] <-base FullCoverageT1> <-input PartialCoverageObliqueT1> Mandatory parameters:
-base FullCoverageT1: Reference anatomical full coverage volume.
-input PartialCoverageObliqueT1: The name says it all.Optional parameters:
- -suffix\ SUF : Output dataset name is formed by adding SUF to
- the prefix of the base dataset. The default suffix is _alnd_PartialCoverageObliqueT1
-keep_tmp : Keep temporary files.
- -clean\ : Clean all temp files, likely left from -keep_tmp
- option then exit.
- -dxyz\ MM : Cubic voxel size of output DSET in TLRC
- space Default MM is 1. If you do not want your output voxels to be cubic
Then use the -dx, -dy, -dz options below.
- -dx\ MX : Size of voxel in the x direction
- (Right-Left). Default is 1mm.
- -dy\ MY : Size of voxel in the y direction
- (Anterior-Posterior). Default is 1mm.
- -dz MZ : Size of voxel in the z direction.
- (Inferior-Superior).Default is 1mm.
Example: @align_partial_oblique -base ah_SurfVol+orig. -input ah_T1W_anat+orig.
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