• If somebody uses the microscope after you, follow the standby protocol.
  • Do not use your home folder (c:\users\<you login>) to save acquired data. Use D:\User Data\ for image data. Beware that this is no place to store data for longterm. We delete image data regularly.
  • Save your data on your external memory stick/harddrive or server.

Start-up protocol

  1. switch on the power supply unit 2 at the red switch (microscope and light sources)
  2. Switch on the computer and login with your University User Account
  3. switch on the power supply unit 1 at the red switch (lasers and spinning disk head)
  4. wait until the microscope has completed initialisation
  5. double click the VisiView icon on the desktop to start software
  6. always lower objective by using escape button before changing objectives
  7. ready to go!


 Visitron CSU-W1_01Visitron CSU-W1_02 Visitron CSU-W1_03Visitron CSU-W1_07


Standby protocol

If someone will use the microscope after you within the next 1-2 hours:

  1. exit the VisiView software
  2. log off your account
  3. clean the objectives


Shut-down protocol

Transfer your data on an external saving device since data on the PC computer will regularly be deleted. 

      1. save all settings and images
      2. lower objective by using escape button
      3. exit the VisiView software
      4. shut down the operating system and workstation (PC)
      5. wait until workstation (PC) has shut down
      6. switch off the power supply unit 2 at the red power switch
      7. switch off the power supply unit 1 at the red power switch
      8. Then:
        - clean up your stuff
        - clean objectives with lense cleaning tissue only
        wipe off excess water of 40x or 60x objectives (use 90% Ethanol to clean 100x objective only)
        - put the cover on the microscope
        - make sure the immersion liquid bottles are closed properly.


Tile scans

For a given objective:

move to a high contrast object on your sample that sticks out from it’s surroundings (isolated specs of dust to a nice job). Then mark the object using a square ROI (100x100x pixel max.). Then click the “Calibrate” button in the Stage tab of the Acquire panel. The stage will move some and the software will observe the object to determine the calibration for the tile scans.


Open the VisiView (Metamorph)-format

You can use the “Imaris” software or the open source project Fiji. The later one comes with Bioformats off the shelve, which is pretty conventient to use.
To get more information and find the installation links go here.


Deconvolution (Image restoration)

Image restoration using deconvolution can significantly improve the quality of the acquired images (see Huygens software).
But because of the microscope configuration we have, you should be aware of some creases described on the Huygens wiki.



For VisiView consult the documentation directly with the help function of the software.

Visiscope system documentation

Microscope manual (Nikon Eclipse Ti-E)