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)