This program is designed to be an add-on for the LaTheta In-vivo CT scanner for small animals. The software which comes with the device lacks of a Dicom export option which is essential for many researchers. The only way to export scanned data is through, as far as I know, 8-bit image data. Fortunately, the program includes a hidden switch to store the measured Hounsfield units in csv like files. The task was to create a Dicom file which includes 14-bit images of the data and some meta-tags of the data-set. This was much of reading work for the Dicom related stuff. A first version is finished and needs to be tested.

Update: The exporter seems to run fine. I changed the DICOM format to 16-bit since the LaTheta has a widespread range of measured values and I don't want to scale the data range. Since January 2009 there is a version of the program installed at the CT of the TRM-Leipzig.

For investigations on the basal cell carcinoma I had to scan several hundred object slides of serial sections. This was done with a Mirax Midi Slide Scanner. After the scanning process the data is stored in an internal format which can be accessed either by using the provided software or by exporting and preprocessing each image manually. Therefore I wrote a tool which

• Accesses the data of the internal format.
• Finds the region of interest.
• Does a Principle Axes Transformation and clears the background.
• Returns the image to Mathematica