Usage: 3dTagalign [options] dset Rotates/translates dataset ‘dset’ to be aligned with the master, using the tagsets embedded in their .HEAD files.
Options:
- -master mset = Use dataset ‘mset’ as the master dataset
- [this is a nonoptional option]
- -nokeeptags = Don’t put transformed locations of dset’s tags
- into the output dataset [default = keep tags]
- -matvec mfile = Write the matrix+vector of the transformation to
- file ‘mfile’. This can be used as input to the ‘-matvec_in2out’ option of 3dWarp, if you want to align other datasets in the same way (e.g., functional datasets).
- -rotate = Compute the best transformation as a rotation + shift.
- This is the default.
- -affine = Compute the best transformation as a general affine
map rather than just a rotation + shift. In all cases, the transformation from input to output coordinates is of the form
[out] = [R] [in] + [V]where [R] is a 3x3 matrix and [V] is a 3-vector. By default, [R] is computed as a proper (det=1) rotation matrix (3 parameters). The ‘-affine’ option says to fit [R] as a general matrix (9 parameters).
- N.B.: An affine transformation can rotate, rescale, and
- shear the volume. Be sure to look at the dataset before and after to make sure things are OK.
- -rotscl = Compute transformation as a rotation times an isotropic
scaling; that is, [R] is an orthogonal matrix times a scalar.N.B.: ‘-affine’ and ‘-rotscl’ do unweighted least squares.
- -prefix pp = Use ‘pp’ as the prefix for the output dataset.
- [default = ‘tagalign’]
-verb = Print progress reports
- -dummy = Don’t actually rotate the dataset, just compute
- the transformation matrix and vector. If ‘-matvec’ is used, the mfile will be written.
-linear }
-cubic } = Chooses spatial interpolation method.
-NN } = [default = cubic]
-quintic }
Nota Bene: * The transformation is carried out
using the same methods as program 3dWarp.
Author: RWCox - 16 Jul 2000, etc.
++ Compile date = Dec 16 2015