Synopsis of core tools

• Image geometry and discretization
  • mincreshape - This tool is used to restructure the data in a MINC file. It can be used to extract a subset of data, or to reorder the dimensions in the data. It does not modify the scaling of data, and it does not change the world coordinate system of the file. Performs dimension length changes, however these are accomplished using very simple voxel averaging or doubling. For more sophisticated file reshaping, see mincresample.
  • mincresample - This tool is used to apply an arbitray coordinate transformation on a MINC file. Can perform tricubic, trilinear, or nearest-neighbor interpolation.
  • mincconcat - This tool will concatentate any number of MINC files along a specific axis, producing a single output file.
• Voxelwise calculations
  • mincmath - Performs simple, ``voxelwise'' math operations on one or more MINC files. For example, mincmath may be used to add two volumes, to add a constant to a volume, to calculate the square or inversion of a volume, etc.
  • mincstats - Calculates a number of basic statistical characteristics of a MINC file. These include voxel count, volume, global minimum and maximum, sum, variance, standard deviation, etc. Will also calculate histograms and histogram-related statistics.
  • minccalc - Similar to mincmath, minccalc can perform a wider and more complex range of voxelwise mathematical operations on a series of MINC files.
  • mincaverage - Calculates an average MINC volume from a number of input volumes.
  • minclookup - Performs a ``lookup table'' conversion on a MINC file replacing values with new values according to an arbitrary function. For example, the file can be converted to a grayscale, spectral RGB values.
  • mincmakescalar - Convert a vector image to a scalar image.
  • mincmakevector - Convert a group of scalar images into a vector image.
• Utility functions
  • mincheader - Print the header of a MINC file.
  • minc_modify_header - Change individual attributes in a MINC file. This is useful for adding or changing supporting information, or for correcting coordinate information without altering data.
  • mincedit - Edit a MINC file.
  • mincview - View a MINC file.
  • minchistory - Print the ``history'' attribute of a MINC file, which provides an audit trail of the commands used to generate this file.
  • mincdiff - Display the differences between two MINC files.
  • minccopy - Copy data from one MINC file to another.
• Basic file format conversion
  • mincconvert - Used to convert a MINC 1 file to a MINC 2 file, or vice versa.
  • minctoraw - Convert a MINC file to a raw data file. A raw data file is a file that consists only of voxel values, stored in a well-ordered arrangement.
  • rawtominc - Convert a raw datafile to a MINC file.
  • mincextract - Extract an arbitrary chunk of MINC file data.
  • mincpik - Generate graphic images from a MINC file.