software:momomagick - diSPIM Wiki

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==== momomagick (& momotrack) ====

[[https://github.com/takushim/momomagick|momomagick]] is a Python toolbox to register, deconvolve and fuse diSPIM images from the command-line interface. [[https://github.com/eguomin/|Min Guo]] originally implemented the registration algorithm used in this toolbox. By using Python, scripts in this toolbox can utilize various registration methods, such as Phase-only correlation (POC) and brute-force matching, switching between various optimization algorithms provided by Scipy. Scripts can run on nVidia GPUs through cupy/cuda libraries. This toolbox was developed to process many single-molecule microscopy images in [[https://www.biorxiv.org/content/10.1101/2024.05.04.590649v1|our study]].

Command-line example:\\
''mmregister.py -g 0 -e Rigid -t Powell time_lapse_3d.tif''

[[https://github.com/takushim/momotrack|momotrack]] is also available to track objects in three-dimensional time-lapse images.

{{:software:cartoons_mainwindow.jpg?300|}}

\\
Manual and code are available at [[https://github.com/takushim/|GitHub]].\\
Preprint is found on [[https://www.biorxiv.org/content/10.1101/2024.05.04.590649v1|bioRxiv]].\\
Contact Takushi Miyoshi at tmiyoshi26@siumed.edu with questions.\\

Trace: • software • gpu_dispimfusion • mipav_generatefusion • labview • lasers

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