This is the command xfm2def that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
xfm2def - convert a MNI transform file to a deformation volume
SYNOPSIS
xfm2def [options] input.xfm def_vol.mnc
DESCRIPTION
xfm2def takes an input transform input.xfm that can consist of a series of concatenated
transforms in a single xfm file and converts this into a single deformation volume that is
output as def_vol.mnc. Note that the output is not a tranform file itself, you can then
make use of this volume in a MINC tranform by creating an .xfm file as such:
MNI Transform File
Transform_Type = Grid_Transform;
Displacement_Volume = def_vol.mnc;
The output resolution and sampling of the deformation grid must be specified or a default
size will be used. (100x100x100 1mm steps centred around the origin).
OPTIONS
-help Print summary of command-line options and exit.
-version
Print the program's version number and exit.
-verbose
Print out extra progress information while running.
-clobber
Overwrite any existing output file
-xnelements nx
Number of elements along the xspace dimension.
-ynelements ny
Number of elements along the yspace dimension.
-znelements nz
Number of elements along the zspace dimension.
-xstep xstep
Step between voxels along the xspace dimension.
-ystep ystep
Step between voxels along the yspace dimension.
-zstep zstep
Step between voxels along the zspace dimension.
-xstart xstart
Position of centre of first voxel along the xspace dimension.
-ystart ystart
Position of centre of first voxel along the yspace dimension.
-zstart zstart
Position of centre of first voxel along the zspace dimension.
-xdircos x1 x2 x3
Direction cosines for the xspace dimension.
-ydircos y1 y2 y3
Direction cosines for the yspace dimension.
-zdircos z1 z2 z3
Direction cosines for the zspace dimension.
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