• Corpus ID: 140220723

Open-Source Matlab-Based Graphical User Interface (GUI) For Computer Control of Microscopes Using Micro-Manager.

  title={Open-Source Matlab-Based Graphical User Interface (GUI) For Computer Control of Microscopes Using Micro-Manager.},
  author={Quang Long Pham and David Chege and Timothy Dijamco and Migle Surblyte and Akshay Naik and Kolawole Campbell and Nhat-Anh N. Tong and Roman S. Voronov},
  journal={arXiv: Image and Video Processing},
Live time-lapse microscopy is essential for a wide range of biological applications. Software-based automation is the gold standard for the operation of hardware accessories necessary for image acquisition. Given that current software packages are neither affordable nor open to complex structured programming, we have developed a Matlab-based graphical user interface (GUI) that is fundamentally accessible while providing limitless avenues for further customization. The GUI simultaneously… 

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and P

    Micro-Manager Programming Guide

      Integrative biology : quantitative biosciences from nano to macro

      • 2009

      Blog, Shading correction of fluorescence images, http://nic.ucsf.edu/blog/2014/01/shading-correction-of-fluorescence-images

      • (accessed June
      • 2018

      Current protocols in molecular biology / edited by Frederick M

      • Ausubel ... [et al.],
      • 2010

      Software, Device Support, https://micromanager.org/wiki/Device%20Support

      • (accessed Jan
      • 2018

      Software, Micro-Manager Programming Guide, https://micromanager.org/wiki/Micro-Manager_Programming_Guide#APIs

      • (accessed June
      • 2018

      Current protocols in molecular biology

        M . - T . O . S . M . Software , Matlab Configuration

        • Integrative biology : quantitative biosciences from nano to macro
        • 2009

        Software, Matlab Configuration, https://micromanager.org/wiki/Matlab_Configuration

        • (accessed June
        • 2018