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Murphy Lab - Software - Proceedings of the 2011 IEEE International Symposium on Biomedical Imaging


The software and data used for the following paper can be downloaded below:

A. Shariff, R.F. Murphy, and G. Rohde (2011) Automated Estimation of Microtubule Model Parameters from 3-D Live Cell Microscopy Images. Proceedings of the 2011 IEEE International Symposium on Biomedical Imaging (ISBI 2011), pp. 1330-1333.

The data and code are contained in .tgz files:

Source Code 55Mb
Intermediate Results
  • intermediate_results.tgzaa
  • intermediate_results.tgzab
  • intermediate_results.tgzac
  • intermediate_results.tgzad
  • intermediate_results.tgzae
  • intermediate_results.tgzaf
  • intermediate_results.tgzag
  • intermediate_results.tgzah
  • intermediate_results.tgzai
  • intermediate_results.tgzaj
  • intermediate_results.tgzak
  • intermediate_results.tgzal
  • intermediate_results.tgzam
  • intermediate_results.tgzan
  • intermediate_results.tgzao
  • intermediate_results.tgzap
  • 31Gb
    Data 37.5Gb

    Generating the Figures from the Article

    From Intermediate Results

    To generate the figures using the intermediate results, download the intermediate results from the links above. To concatenate and untar type in the command line
    cat intermediate_results.tgza* > intermediate_results.tgz
    tar -xvzf intermediate_results.tgz

    Move the contents of this folder into the source code folder and run masterscript from within Matlab.

    From Raw Data

    To generate the figures using raw data, download the image collection from the link above. Extract the images and move the contents of this folder into the source code folder. Then run masterscript from within Matlab.

    Tests

    This package has been tested in the following Matlab versions.
    Linux x64 Windows 7 MacOSX
    Matlab 2010b x
    Matlab 2011a

    System requirements

    • Matlab
      • Image Processing Toolbox for Matlab
      • Statistics Toolbox for Matlab



    Last Updated: 05 Nov 2012




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