Towards on-the-fly Cryo-Electron Microscopy Data Processing by High Performance Data Analysis

Abstract

Abstract. In this paper we present an approach to the on-the-fly Cryo-EM data acquisition and analysis using High Performance Data Analysis concept. An analysis of bottlenecks in the currently used data processing is presented, and the new iterative scheme for near real time implementation of the Cryo-EM data processing is discussed. The on-the-fly approach is proposed that will considerably reduce the time required for the protein (or other biological objects, e.g. viruses) 3D structure determination and allow eliminating manual interventions in the data processing.

Using Scipion for stream image processing at Cryo-EM facilities

“…In fact, in most places this is accomplished through home made scripts (e.g. Pichkur et al, 2018). Exceptions are UCSFImage4 (Li et al, 2015), Focus (Biyani et al, 2017), Warp (Tegunov and Cramer, 2018) and Relion (Fernandez-Leiro and Scheres, 2017).…”