Affiliation:
1. Institute of Computer Science, Masaryk University, Botanická 68a, 60200 Brno, Czech Republic
2. Spanish National Centre for Biotechnology, Spanish National Research Council, Calle Darwin, 3, 28049 Madrid, Spain
Abstract
Cryogenic electron microscopy (Cryo-EM) has been established as one of the key players in structural biology. It can reconstruct a 3D model of a sample at a near-atomic resolution. With the increasing number of facilities, faster microscopes, and new imaging techniques, there is a growing demand for algorithms and programs able to process the so-called movie data produced by the microscopes in real time while preserving a high resolution and maximal information. In this article, we conduct a comparative analysis of the quality and performance of the most commonly used software for movie alignment. More precisely, we compare the most recent versions of FlexAlign (Xmipp v3.23.03), MotionCor2 (v1.6.4), Relion MotionCor (v4.0-beta), Warp (v1.0.9), and CryoSPARC (v4.0.3). We tested the quality of the alignment using generated phantom data, as well as real datasets, comparing the alignment precision, power spectra density, and performance scaling of each program.
Subject
Electrical and Electronic Engineering,Mechanical Engineering,Control and Systems Engineering
Reference19 articles.
1. Chapter Two—Specimen Behavior in the Electron Beam;Crowther;Methods in Enzymology,2016
2. MicroED with the Falcon III direct electron detector;Hattne;IUCrJ,2019
3. Fréchin, L., Holvec, S., Von Loeffelholz, O., Hazemann, I., and Klaholz, B. (2023). High-resolution cryo-EM performance comparison of two latest-generation cryo electron microscopes on the human ribosome. J. Struct. Biol., 215.
4. Marko, A. (2023, February 01). CryoEM Takes Center Stage: How Compute, Storage, and Networking Needs Are Growing with CryoEM Research. Available online: https://www.microway.com/hpc-tech-tips/cryoem-takes-center-stage-how-compute-storage-networking-needs-growing.
5. Progressive assembly of multi-domain protein structures from cryo-EM density maps;Zhou;Nat. Comput. Sci.,2022