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)