View source for NAMIC-Dartmouth-DWI-to-NRRD-Format

Note: please also see [[NAMIC-Dartmouth-DWI|this page about NRRD headers which refer to the original image files]], without the need for any additional data reading with MATLAB.

The following MATLAB script converts the Dartmouth DWIs into a single file in which the volumes (2 baselines and 12 diffusion weighted images) are in the appropriate space. The resulting raw image, together with [[NAMIC-Dartmouth-nrrdheader|a nrrd header]], are used by Slicer to do DTI analysis.

 fpout = fopen('nrrdraw.raw', 'w');
   for k = 1:14;
     % for subject 1,2,4,5 the slice order is Superior-Inferior, need to
     % reverse order
     % for m = 36:-1:1
     % for subject 3, 6, the slice order is Inferior-superior
     for m = 1:36
       n = (k-1)*36+m;
       % use appropriate dicom prefix
       name = sprintf('S8.%03d', n);
       fp = fopen(name);
       fseek(fp, -65536*2, 'eof');
       A = fread(fp, [256 256], 'short');
       fclose(fp);
       fwrite(fpout, A, 'short');
     end
    end
  fclose(fpout);