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nii2mnc(1)                                                          nii2mnc(1)

NAME
       nii2mnc - convert a NIfTI-1 or Analyze 7.5 format file to a MINC format
       file.

SYNOPSIS
       nii2mnc [<options>] <infile> <outfile.mnc>

       nii2mnc -help

DESCRIPTION
       The nii2mnc command is used to convert "NIfTI-1" format files to MINC
       format.  The NIfTI-1 format was developed by the members of the
       Neuroinformatics Technology Initiative's Data Format Working Group
       (DFWG).  The NIfTI-1 format is based upon the Mayo Clinic's Analyze 7.5
       format.

       The name of the program is derived from the common filename suffixes
       used for NIfTI-1 and MINC files.  NIfTI-1 defines two possible formats,
       a "header plus raw image" 2-file format, and a single-file format that
       includes both header information and the image data.  As with Analyze
       7.5, the 2-file format consists of one file with the suffix ".hdr" and
       another file with the extension ".img".  In NIfTI-1 single-file format,
       the two files may be combined into a single file with a ".nii" filename
       suffix.

OPTIONS
       Note that options can be specified in abbreviated form (as long as they
       are unique) and can be given anywhere on the command line.

Output voxel format
       -float Save voxels in 32-bit floating point format

       -double
              Save voxels in 64-bit floating point format

       -byte  Save voxels in 8-bit integer format

       -short Save voxels in 16-bit integer format

       -int   Save voxels in 32-bit integer format

       -signed
              Save voxels in signed (2's complement) integer format

       -unsigned
              Save voxels in unsigned integer format

Analyze 7.5 specific options
       -transverse
              Assume data is in ZYX dimension order.

       -sagittal
              Assume data is in XZY dimension order.

       -coronal
              Assume data is in YZX dimension order.

       -xyz   Assume data is in XYZ dimension order.

       -zxy   Assume data is in ZXY dimension order.

       -yxz   Assume data is in YXZ dimension order.

       -flipx, -flipy, -flipz
              Invert the samples along the given axis.

Other options
       -noscanrange
              Don't scan data to determine valid range.

       -quiet Quiet operation - do not print progress or debugging
              information.

Generic options for all commands
       -help  Print summary of command-line options and abort

       -version
              Print the program and library versions and abort

KNOWN BUGS
       Current handling of NIfTI-1 qform and sform coordinate transforms
       should probably be revised as the NIfTI group clarifies the correct
       usage of these fields.

SEE ALSO
       mnc2nii

AUTHOR
       Robert Vincent (bert@bic.mni.mcgill.ca) with assistance from the
       NIfTI-1 library authored by Robert Cox et al.

COPYRIGHTS
       Copyrights 2005 by Robert Vincent for the Montreal Neurological
       Institute.

$Revision: 1.4 $                  Apr 22 2005                       nii2mnc(1)