EMHP: an accurate automated hole masking algorithm for single-particle cryo-EM image processing

Zachary Berndsen; Charles Bowman; Haerin Jang; Andrew B Ward

doi:10.1093/bioinformatics/btx500

EMHP: an accurate automated hole masking algorithm for single-particle cryo-EM image processing

Bioinformatics. 2017 Dec 1;33(23):3824-3826. doi: 10.1093/bioinformatics/btx500.

Authors

Zachary Berndsen¹, Charles Bowman¹, Haerin Jang¹, Andrew B Ward¹

Affiliation

¹ Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, 92037, USA.

Abstract

Summary: The Electron Microscopy Hole Punch (EMHP) is a streamlined suite of tools for quick assessment, sorting and hole masking of electron micrographs. With recent advances in single-particle electron cryo-microscopy (cryo-EM) data processing allowing for the rapid determination of protein structures using a smaller computational footprint, we saw the need for a fast and simple tool for data pre-processing that could run independent of existing high-performance computing (HPC) infrastructures. EMHP provides a data preprocessing platform in a small package that requires minimal python dependencies to function.

Availability and implementation: https://www.bitbucket.org/chazbot/emhp Apache 2.0 License.

Contact: bowman@scripps.edu.

Supplementary information: Supplementary data are available at Bioinformatics online.

MeSH terms

Algorithms*
Cryoelectron Microscopy*
Image Processing, Computer-Assisted / methods*
Pattern Recognition, Automated / methods
Proteins / chemistry

Substances

Proteins