[Master Index] [Index for Toolbox]

# help_data_image

## (Toolbox/help_data_image.m in BrainStorm 2.0 (Alpha))

### Function Synopsis

    helptext = help_data_image;

### Help Text

    HELP_DATA_IMAGE - Information on database files of type 'image'
     function helptext = help_data_image;

           Cube : is the actual image set, x, y, z, left to right, back to front,
                  bottom to top, of size M x N x P.
      DataClass : a string describing the bit encoding of the gray levels (e.g. 'ushort')
      Voxsize   : Size of a voxel in mm (e.g. [0.9375    0.9375    0.9375])
      scantype  : a string label indicating the scan direction (e.g. 'Axial')
            SCS : structure with fields:
                FiducialName : cell array of ORDERED fiducial labels,
                               nasion, left and right and origin)
                              (e.g. 'Nasion', 'Left ear','Right ear', 'CTF Origin')
                              (additional fiducials are stored in Landmarks below).
              mmCubeFiducial : is 3 x n array of ORDERED coordinate fiducial points
                               in mm (see FiducialName)
                               MRI coordinates relative to 0,0,0 point.
                      System : keyword, {'CTF','NEUROMAG'}
                           R : 3x3 rotation matrix (cosines)
                           T : translation 3x1 vector (units of mm)

                               Transformation formulas are:
                               x(SCS coordinates) = R * x(MRI coordinates) + T
                               x(MRI) = inv(R)*(x(SCS) - T)

     Landmarks : a structure specifying locations of extra points of interests with fields:
                    MRImmXYZ : a 3xn array of landmark locations in mm and MRI coordinate system
                    Names    : a cell array of string used to label the landmarks

     See http://neuroimage.usc.edu/brainstorm/GUI_CoordinateSystem.htm

     See also SCS2MRI, MRI2SCS, HELP_DATA_CHANNEL

### Cross-Reference Information

This function calls

    brainstorm                         C:\BrainStorm_2001\Toolbox\brainstorm.m

### Listing of function C:\BrainStorm_2001\Toolbox\help_data_image.m

    function helptext = help_data_image;
    %HELP_DATA_IMAGE - Information on database files of type 'image'
    % function helptext = help_data_image;
    %
    %       Cube : is the actual image set, x, y, z, left to right, back to front,
    %              bottom to top, of size M x N x P.
    %  DataClass : a string describing the bit encoding of the gray levels (e.g. 'ushort')
    %  Voxsize   : Size of a voxel in mm (e.g. [0.9375    0.9375    0.9375])
    %  scantype  : a string label indicating the scan direction (e.g. 'Axial')
    %        SCS : structure with fields:
    %            FiducialName : cell array of ORDERED fiducial labels,
    %                           nasion, left and right and origin)
    %                          (e.g. 'Nasion', 'Left ear','Right ear', 'CTF Origin')
    %                          (additional fiducials are stored in Landmarks below).
    %          mmCubeFiducial : is 3 x n array of ORDERED coordinate fiducial points
    %                           in mm (see FiducialName)
    %                           MRI coordinates relative to 0,0,0 point.
    %                  System : keyword, {'CTF','NEUROMAG'}
    %                       R : 3x3 rotation matrix (cosines)
    %                       T : translation 3x1 vector (units of mm)
    %
    %                           Transformation formulas are:
    %                           x(SCS coordinates) = R * x(MRI coordinates) + T
    %                           x(MRI) = inv(R)*(x(SCS) - T)
    %
    % Landmarks : a structure specifying locations of extra points of interests with fields:
    %                MRImmXYZ : a 3xn array of landmark locations in mm and MRI coordinate system
    %                Names    : a cell array of string used to label the landmarks
    %
    % See http://neuroimage.usc.edu/brainstorm/GUI_CoordinateSystem.htm
    %
    % See also SCS2MRI, MRI2SCS, HELP_DATA_CHANNEL

    %<autobegin> ---------------------- 26-May-2004 11:30:26 -----------------------
    % --------- Automatically Generated Comments Block Using AUTO_COMMENTS ---------
    %
    % CATEGORY: Help
    %
    % At Check-in: $Author: Mosher $  $Revision: 14 $  $Date: 5/26/04 9:59a $
    %
    % This software is part of BrainStorm Toolbox Version 2.0 (Alpha) 24-May-2004
    %
    % Principal Investigators and Developers:
    % ** Richard M. Leahy, PhD, Signal & Image Processing Institute,
    %    University of Southern California, Los Angeles, CA
    % ** John C. Mosher, PhD, Biophysics Group,
    %    Los Alamos National Laboratory, Los Alamos, NM
    % ** Sylvain Baillet, PhD, Cognitive Neuroscience & Brain Imaging Laboratory,
    %    CNRS, Hopital de la Salpetriere, Paris, France
    %
    % See BrainStorm website at http://neuroimage.usc.edu for further information.
    %
    % Copyright (c) 2004 BrainStorm by the University of Southern California
    % This software distributed  under the terms of the GNU General Public License
    % as published by the Free Software Foundation. Further details on the GPL
    % license can be found at http://www.gnu.org/copyleft/gpl.html .
    %
    % FOR RESEARCH PURPOSES ONLY. THE SOFTWARE IS PROVIDED "AS IS," AND THE
    % UNIVERSITY OF SOUTHERN CALIFORNIA AND ITS COLLABORATORS DO NOT MAKE ANY
    % WARRANTY, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO WARRANTIES OF
    % MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE, NOR DO THEY ASSUME ANY
    % LIABILITY OR RESPONSIBILITY FOR THE USE OF THIS SOFTWARE.
    %<autoend> ------------------------ 26-May-2004 11:30:26 -----------------------

    % OBSOLETE ________________________________________________________
    %      Comment : String comment about the file
    %          PCS : The patient coordinate system (see below)
    %      Segment : A segment of the cube
    %      Voxsize : The dimensions of the voxels
    %
    %      Structure 'PCS' has the following fields:
    %               Comment: char    e.g. 'CTF'
    %          CubeFiducial: [3x6 double]
    %          FiducialName: [1x6 cell]
    %           PCSFiducial: [3x6 double]
    %                     R: [3x3 double]
    %                     t: [3x1 double]
    %
    %___________________________________________________________________
    % -- Notes --
    %  Cube:
    %  PCS:
    %  Voxsize:

    % ----------------------------- Script History ---------------------------------
    % 25-May-2004 JCM  Updating, cleaning comments
    % ----------------------------- Script History ---------------------------------

    % This help file template was generated by 'make_help' on 24-Sep-2003 13:58:29
    %
    % This help file is callable as "help help_data_image" (at the command line),
    %  "help_data_image" (in the Matlab help window), or
    %  "txt = help_data_image;" (no display, return only txt).

    if nargout,
       helptext = help(mfilename); % return help block to output variable
    else
       helpwin(mfilename); % no output variable, display in help window
    end

    web('http://neuroimage.usc.edu/brainstorm/GUI_CoordinateSystem.htm','-browser')

Produced by color_mat2html, a customized BrainStorm 2.0 (Alpha) version of mat2html on Tue Nov 2 16:17:59 2004
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