mnc2nii(1) convert a MINC format file to a NIfTI-1 or Analyze format file.


mnc2nii [<options>] <infile.mnc> <outfile.mnc>

mnc2nii -help


The mnc2nii command is used to convert MINC format files to either NIfTI-1 or Analyze 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.

In addition to the NIfTI-1 formats, mnc2nii can convert MINC files to the Analyze 7.5 format.


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 file format

Save file in NIfTI-1 two-file format (.hdr and .img)
Save file in non-standard NIfTI-1 ASCII file format
Save file in NIfTI-1 single-file format (.nii)
Save file in Analyze 7.5 compatible format

Output voxel format

Save voxels in 32-bit floating point format
Save voxels in 64-bit floating point format
Save voxels in 8-bit integer format
Save voxels in 16-bit integer format
Save voxels in 32-bit integer format
Save voxels in signed (2's complement) integer format
Save voxels in unsigned integer format

Other options

Don't scan data to determine valid range.
Quiet operation - do not print progress or debugging information.

Generic options for all commands

Print summary of command-line options and abort
Print the program and library versions and abort


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.


Robert Vincent ([email protected]) with assistance from the NIfTI-1 library authored by Robert Cox et al.


Copyrights 2005 by Robert Vincent for the Montreal Neurological Institute.