The Ettention software package
Status PubMed-not-MEDLINE Language English Country Netherlands Media print-electronic
Document type Journal Article, Research Support, Non-U.S. Gov't
PubMed
26686659
DOI
10.1016/j.ultramic.2015.10.012
PII: S0304-3991(15)30045-0
Knihovny.cz E-resources
- Keywords
- Block iterative methods, Electron tomography, GPU, High performance computing, OpenCL, Software architecture, Tomographic reconstruction,
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
We present a novel software package for the problem "reconstruction from projections" in electron microscopy. The Ettention framework consists of a set of modular building-blocks for tomographic reconstruction algorithms. The well-known block iterative reconstruction method based on Kaczmarz algorithm is implemented using these building-blocks, including adaptations specific to electron tomography. Ettention simultaneously features (1) a modular, object-oriented software design, (2) optimized access to high-performance computing (HPC) platforms such as graphic processing units (GPU) or many-core architectures like Xeon Phi, and (3) accessibility to microscopy end-users via integration in the IMOD package and eTomo user interface. We also provide developers with a clean and well-structured application programming interface (API) that allows for extending the software easily and thus makes it an ideal platform for algorithmic research while hiding most of the technical details of high-performance computing.
German Research Center for Artificial Intelligence GmbH 66123 Saarbrücken Germany
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