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CellOrganizer
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    • CellOrganizer for Matlab
      • Version 2.10
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CellOrganizer v1.9

Release Notes

This version of CellOrganizer can be used through a few simple Matlab
scripts or via a graphical user interface. CellOrganizer has been tested in Linux using Matlab 2011b/2012b and in MacOSX using 2012a.

  • Version 1.9.1
    1. Updated template files.
    2. Updated methods so that if it fails to synthesize a framework on an iteration, it will report to the user and will try to synthesize more images without exiting CellOrganizer. This feature is useful for individuals running CellOrganizer in a cluster.

 

  • Version 1.9
    1. Uses Bio-Formats to read images, thus supporting multiple image file formats.
    2. Supports use of wildcards when defining the path to image files.
    3. Better handling of edge cases, improved logging as well providing more feedback on training or synthesis failure.
    4. No longer supports 3D images as a list of single tiff files.
    5. Users can use the training flag when learning a 2D generative model, that is they can decide whether they want to train a nuclear shape model, a framework model or framework model with a protein pattern model.

 

Source Code README RELEASE NOTES
CellOrganizer v1.9.1 Text Document PDF Document
CellOrganizer v1.9.0 Text Document PDF Document

Coming soon! Compiled versions for Linux and Mac OS X. These versions do not require a Matlab installation or license.

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Recent Posts

  • CellOrganizer v2.10 Released June 22, 2023
  • New Release! CellOrganizer v2.9.3 November 17, 2021
  • MMBioS 2021 Workshop July 29, 2021
  • New Release! CellOrganizer v2.9.2 July 13, 2021
  • New Release! CellOrganizer v2.9.1 July 12, 2021

Contact Us

If you have a question regarding any of the CellOrganizer products, then feel free to send us a message.

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Support for CellOrganizer has been provided by grants GM075205, GM090033 and GM103712 from the National Institute of General Medical Sciences, grants MCB1121919 and MCB1121793 from the U.S. National Science Foundation, by a Forschungspreis from the Alexander von Humboldt Foundation, and by the Freiburg Institute for Advanced Studies.

Copyright © 2007-2020 by the Murphy Lab, Carnegie Mellon University