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MemXTerminator

A software for membrane analysis and subtraction in cryo-EM.

Overview

This software utilizes 2D averages and their corresponding alignment information, employing methods such as Radon transformation, cross-correlation, L1 norm, Bezier curves, Monte Carlo simulations, and genetic algorithms. It analyzes and subtracts membranes of any shape in cryo-EM, ultimately producing particle stacks and micrographs with membrane signals removed, suitable for subsequent membrane protein analysis.

Features

• Capable of analyzing biological membranes of any shape, including simple lines and arcs, as well as more complex shapes like S or W curves;
• Accurately locates and subtracts biological membrane signals;
• Utilizes GPU and CUDA acceleration to enhance computational speed;
• Features a user-friendly GUI.

Requirements

• This software requires a GPU and CUDA acceleration, necessitating the installation of CUDA drivers and libraries, as well as the cupy library.
• In some cases, pyem is also needed to convert cryoSPARC’s .cs files to Relion’s .star format for processing.

Installation

Please refer to the installation section of the wiki.

Usage

This software has a user-friendly GUI. To use this software, simply type:

MemXTerminator gui &

For detailed tutorials, please refer to the wiki page.

License

This software is licensed under GPL v3.0.

Acknowledgement

Thanks to Jack Zhang@Yale MBB for his guidance.

Contributing

Always welcome! This software may still has room for improvement such as updating the usage documentation, improving the GUI design, and enhancing the software's usability.

I am still working on improving this software. More exciting features are on the way!

Contact

If you have any questions, please contact me: [email protected]