Provided by: voxbo_1.8.5~svn1246-1ubuntu1_i386 bug


       voxbo-fileformats  -  general  information about file format support in


       The VoxBo suite of tools for brain image analysis supports a variety of
       formats  for  1D (vector), 2D (matrix), 3D (volume) and 4D (volume time
       series) data.

       File format support in VoxBo is modular - most of the  tools  can  read
       and  write  any  supported  file format transparently, with output file
       formats usually determined by the file extension.

       The i/o library supports several special access methods.  For 4D files,
       filename:mask  is  used to access the inclusion mask of a 4D file.  The
       mask is treated as a 3D volume.  Similarly, filename:n accesses the nth
       volume  of  the  4D  series  in filename, where n is an integer and the
       first volume is numbered 0.

       When writing, VoxBo honors filename tags that can be  used  to  specify
       the  fileformat or byteorder.  Tags are specified in square brackets at
       the end of the filename, and multiple tags can be separated within  the
       brackets  by  commas.   For example, foo[imgdir] can be used to specify
       the imgdir file format (useful because imgdir  format  doesn't  have  a
       standard  extension).  foo.nii[little] forces little-endian storage for
       file formats that allow it.

   VoxBo native file formats
       VoxBo's native file formats, all supported for read and write,  include
       .ref (1D), .mat (2D), .cub (3D), and .tes (4D).  Although these formats
       are not widely supported in external software, they offer  some  useful
       features,  including  user-editable  text headers.  gzip-compressed cub
       and tes files are supported transparently.

       VoxBo supports 3D and 4D NIfTI files (compressed or not) for  read  and
       write.    VoxBo   does  not  currently  make  intelligent  use  of  the
       qform/sform orientation information.

       VoxBo supports SPM-style Analyze(TM) files, including 3D and 4D  files,
       as  well as 4D time series composed of directories containing 3D files,
       for read/write.  All individual files are stored in .img/.hdr pairs.

       VoxBo supports DICOM (as well as some DICOM-like  files  in  the  older
       ACR/NEMA  format)  for  reading  only.   VoxBo supports a corner of the
       DICOM  standard  frequently  encountered  in  brain  imaging  research,
       including  mosaic  format  volumes.  Files containing single slice data
       are read as 3D volumes.   Directories  containing  multiple  files  are
       generally  parsed  as  3D  or  4D  data,  as appropriate, as long as no
       extraneous files are in the directory.

   Text Matrices and Vectors
       Plain text files containing just numbers (or  comment  lines  beginning
       with #, %, or ;), can be parsed as matrix or vector data.



       Pre-built  VoxBo binaries are available for Linux, OSX, and Cygwin, and
       via the NeuroDebian project ( for Debian derivatives.


       VoxBo is provided with no warranty whatsoever.


       For  an  historical  roster  of  the  VoxBo  development  team,   visit


       For  detailed  help  on  any VoxBo command-line program, run it with no
       arguments.  For graphical programs, use the -h  flag.   For  more  help
       with  VoxBo, for information about the mailing list, or to report bugs,
       visit the web site at

       For general information about VoxBo, see voxbo(7).