A Python-based computational tool for membrane signal analysis and subtraction in cryo-EM.
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 images, ultimately producing particle stacks and micrographs with membrane signals removed. This is particular useful for cryo-EM analysis of membrane proteins embeded in the native lipid bilayers with irregular shapes.
- 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 for ease of use.
- 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
.csfiles to Relion’s.starformat for processing.
For specific installation methods, please refer to the installation document: [Installation Document] [安装文档]
For detailed usage tutorials, please refer to the documentation: [Usage Index] https://memxterminator.github.io/wiki/
This software is licensed under GPL v3.0.
Mr. Zhen Huang at The Zhang Laboratory at Molecular Biophysics and Biochemistry, Yale University.
If you have any questions, please contact Zhen Huang at [email protected], or Jack Zhang at [email protected]
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This is a tool to directly sample and calculate membrane curvature from cryo-EM density maps, as well as build lipids bilayers into your membrane density maps.
With Cryo-MEM Modeler you can:
- Sample your membrane density with PO4 molecules and convert it into pdb files, where you can check or visualize it in your own way.
- Derive 2D curvature contour maps.
- Build PDB models of lipids out a provided cryo-EM density map.