To set the header information manually:

  1. In the Data panel, click Add Volume. The Props tab of the Volumes panel will appear.

  2. To find the first image file, click Browse. A dialog box will appear.
  3. Select the first image of the volume that you would like to load, and then click Open. (The number of the last image in the volume will automatically appear in the Number of Last Image field.)
  4. Set Image Headers to Manual.
  5. Click Apply. The Header section of the Props tab will appear.
  6. Change the default values to the values of your volume, namely, the physical parameters of the pixels that make up your volume. These parameters include:
    • File Pattern: The pattern for naming the files, expressed in C language syntax. For example, a file named skin.001 has a pattern of %s.%03d, and a file named skin.1 has %s.%d for a pattern.
    • Image Size: Number of pixels of the image in the x and y directions. (For square images, they are the same.)
    • Pixel Size: Size of each pixel in the x and y directions. (For square images, they are the same.)
    • Slice Thickness: The z dimension of the voxel.
    • Scan Order:
      • LR = left to right
      • IS = inferior to superior
      • PA = posterior to anterior
    • Scalar Type: The data format of the pixel. Generally, it is Short (16 bit integer).
    • Slice Tilt: The tilt of the gantry during an MRI.
    • Num Scalars: The number of scalar components for each voxel. Gray-level data has 1. Color data has 3.
    • Little Endian: In little-endian architectures, the rightmost bytes are most significant. In big-endian architectures (Slicer default), the leftmost bytes (those with a lower address) are most significant.
    • DTI data: This parameter, and the values Swap and No Swap, are placeholders for future use.
  7. When you are done, click Apply to read in the volume. Your data will now appear in the 2D portion of the Viewer window.