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Man Pages


Manual Reference Pages  -  XFM2DEF (1)

NAME

xfm2def - convert a MNI transform file to a deformation volume

CONTENTS

Synopsis
Description
Options
Author
Copyrights

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.

AUTHOR

Andrew Janke

COPYRIGHTS

Copyright © 2010 Andrew Janke - a.janke@gmail.com

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XFM2DEF (1) $Date: 2010-08-11 04:06:42 $

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