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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