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nii2mnc(1) [debian man page]

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 Neu-
       roinformatics 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 for-
       mats, 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)

Check Out this Related Man Page

MINCCONVERT(1)							 MINC User's Guide						    MINCCONVERT(1)

NAME

       mincconvert - convert between MINC 1 to MINC 2 format.

SYNOPSIS

       mincconvert [-clobber] [-2] infile outfile

       mincconvert -help

DESCRIPTION

       mincconvert copies the input file to the output file, possibly converting the file from MINC 1 to MINC 2 format, or vice versa.

       With  the  -template  flag,  mincconvert  creates  a "template" volume from the input MINC volume. The template volume preserves all of the
       structure (dimensions, variables, and attributes) of the input MINC volume but omits all data.	Any  attempt  to  read	data  will  return
       zeroes.

       The  resulting  file is typically much shorter than a normal MINC volume, and may be useful for scripts which want to carry such structural
       information forward into their output files. As a hint to future programmers and users, this program places a special global  attribute	in
       the file, with the name class and the value template.

OPTIONS

       -2     Create a MINC 2 format file

       -clobber
	      Overwrite a pre-existing output file.  -help Print a summary of command line options and exit

       -template
	      Create a template file.

       -compress N
	      Compress	file with compression level N.	Valid compression levels are 0 for no compression to 9 for maximum compression. The option
	      has no effect if the output file is a MINC 1 file.

       -chunk M
	      Store file in a block-structured arrangement, using hypercubes of edge length M.	The option has no effect if the output file  is  a
	      MINC 1 file.

       -help  Print summary of command-line options and exit.

       -version
	      Print the program's version number and exit.

AUTHOR

       Bert Vincent - bert@bic.mni.mcgill.ca

COPYRIGHTS

       Copyright (C) 2003 by Robert Vincent and the Montreal Neurological Institute.

							   $Date: 2004-05-20 21:52:08 $ 					    MINCCONVERT(1)
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