Server Access

    WindowsXP instructions as .pdf
    Mac OS instructions as .pdf

    Citing the Facility in a Manuscript

    Here is a Word document with all the information you need to cite a piece of Facility equipment or software in your Materials and Methods section or to make a general acknowledgement of facility use.

    Acknowledging the Facility or the Technical Directors and listing the Core equipment you used in the Materials and Methods section helps us demonstrate how much our Core contributes to the University community and track the impact of each piece of equipment on research infrastructure.

    Beginning September 2013 - If you send us a .pdf copy of an accepted manuscript which acknowledges the Facility or states that you used equipment from the Facility, we will credit you ONE HOUR of FREE microscope / software time on the equipment of your choice on your next invoice. Only manuscripts accepted for publication AFTER July 2013 qualify for this promotion.

    Scale Bar Calibrations

    Pixel size depends on the microscope/camera used, the objective magnification, and any binning or zoom factor used during image capture.

    "Live Cell" Olympus DSU Spinning Disk Confocal

    "Fixed Cell" Olympus DSU Spinning Disk Confocal

    Olympus IX81 widefield (formerly the TIRF) microscope

    Files from the three Leica confocals (the SP5/2-photon, the SP5-II STED and the SP2) come with a .txt file that contains the proper pixel (or voxel) size for each image. This pixel size is dependent on objective magnification + zoom factor, so if your images used the same objective but different zoom factors, your calibration factors will be different.

    Imaris 3D and 4D Rendering and Analysis Software from BitPlane

    Imaris website from Bitplane (64-bit Windows only, available in the KCBD site only) -- powerful multi-dimensional image processing software. Ideal for multi-dimensional rendering, particle tracking in 4D (volume over time), neurite tracing, spine counts, and multi-dimensional measuements (volume, area, 3D counts, etc.).

    Huygens Deconvolution Software from SVI

    Huygens Pro from SVI (64-bit Windows Server, available by remote desktop) -- Our prefered deconvolution package. Our pacakge includes the module for STED deconvolution!

    Using Huygens Pro by Remote Desktop (download-able .pdf) -- Instructions on how to connect to the Huygens Pro deconvolution software, available on the Windows 64-bit server workstation in KCBD 1250 or by remote desktop from any UChicago network computer.

    More Helpful Documents

    ImageJ and Fiji Help