image thumbnail

A Bayesian Adaptive Basis Algorithm for Single Particle Reconstruction

version 1.0.0.0 (7.39 MB) by Alp
3D reconstruction algorithm for electron cryo-microscopy.

923 Downloads

Updated 5 Apr 2012

View License

Traditional single particle reconstruction methods use either the Fourier or the delta function basis to represent the particle density map. We propose a more flexible algorithm that adaptively chooses the basis based on the data. Because the basis adapts to the data, the reconstruction resolution and signal-to-noise ratio (SNR) is improved compared to a reconstruction with a fixed basis. Moreover, the algorithm automatically masks the particle, thereby separating it from the background. This eliminates the need for ad-hoc filtering or masking in the refinement loop. The algorithm is formulated in a Bayesian maximum-a-posteriori framework and uses an efficient optimization algorithm for the maximization. Evaluations using simulated and actual cryogenic electron microscopy data show resolution and SNR improvements as well as the effective masking of particle from background.

These files provide a MATLAB implementation of our algorithm with a small simulated cryo-EM dataset for testing.

Cite As

Alp (2022). A Bayesian Adaptive Basis Algorithm for Single Particle Reconstruction (https://www.mathworks.com/matlabcentral/fileexchange/36040-a-bayesian-adaptive-basis-algorithm-for-single-particle-reconstruction), MATLAB Central File Exchange. Retrieved .

MATLAB Release Compatibility
Created with R2011b
Compatible with any release
Platform Compatibility
Windows macOS Linux

Community Treasure Hunt

Find the treasures in MATLAB Central and discover how the community can help you!

Start Hunting!