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STORM movie analysis code
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.travis Also 'conda install' scons module. Oct 4, 2019
doc Tweak parameter description. Oct 25, 2019
docker Add command to upgrade pip. Sep 18, 2018
jupyter_notebooks Fix comment. Jul 12, 2019
storm_analysis Update version information. Nov 4, 2019
.gitignore Partial cleanup. Aug 30, 2018
.travis.yml Use most recent image. Jul 12, 2019 Modifications to MANIFEST, SConstruct to make compiling and installin… Aug 8, 2017 Add note about Python 2 deprecation. Oct 4, 2019
SConstruct Add C library for OTF scaling. Add test. Jan 24, 2019
appveyor.yml Fix typo. Apr 8, 2019
setup.cfg Configure pytest to only look for files that start with 'test' Nov 1, 2017


This is a repository of code developed in the Zhuang lab and the Babcock lab for analysis of STORM movies.

Some algorithms were developed in other groups and ported to Python. In this case the license applies only to our implementation of the code. If you plan to use the algorithm in a commercial product you should discuss this with the original developers (IANAL).

The code should work with both Python2.7 and Python3, but Python3 is recommended. Python2 support will be deprecated in January 2019.

Linux Build Status Windows Build status Documentation Status

Discussion Group


The documentation for the latest release is here.

The documentation for git head is here.

Jupyter Notebooks

Jupyter notebooks that document how to use this project are available in the jupyter_notebooks directory.

Additional notebooks are available here.

Thanks to Google Colaboratory you can install and run storm-analysis on a virtual machine in Google's cloud, no local install necessary. Please see the notebooks in the colab directory here. You will need a Google account to do this.


Docker images are available here.




General Notes

Questions should be addressed to Hazen Babcock (hbabcock at

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