---
name: "xfm2def"
section: "1"
platform: "linux"
package: "minc-tools"
version: "2.3.00+dfsg-12"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/xfm2def"
---

# xfm2def(1)

convert a MNI transform file to a deformation volume

## 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 transform file itself, you can then make use of this volume in a MINC transform 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