Physically motivated global alignment method for electron tomography
Abstract
Electron tomography is widely used for nanoscale determination of 3-D structures in many areas of science. Determining the 3-D structure of a sample from electron tomography involves three major steps: acquisition of sequence of 2-D projection images of the sample with the electron microscope, alignment of the images to a common coordinate system, and 3-D reconstruction and segmentation of the sample from the aligned image data. The resolution of the 3-D reconstruction is directly influenced by the accuracy of the alignment, and therefore, it is crucial to have a robust and dependable alignment method. In this paper, we develop a new alignment method which avoids the use of markers and instead traces the computed paths of many identifiable ‘local’ center-of-mass points as the sample is rotated. Compared with traditional correlation schemes, the alignment method presented here is resistant to cumulative error observed from correlation techniques, has very rigorous mathematical justification, and is very robust since many points and paths are used, all of which inevitably improves the quality of the reconstruction and confidence in the scientific results.
- Authors:
-
- Univ. of South Carolina, Columbia, SC (United States)
- Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
- UOP LLC, a Honeywell Co., Des Plaines, IL (United States)
- Publication Date:
- Research Org.:
- Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1214822
- Grant/Contract Number:
- AC05-76RL01830
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Advanced Structural and Chemical Imaging
- Additional Journal Information:
- Journal Volume: 1; Journal Issue: 1; Journal ID: ISSN 2198-0926
- Publisher:
- Springer
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 77 NANOSCIENCE AND NANOTECHNOLOGY; electron tomography; image alignment
Citation Formats
Sanders, Toby, Prange, Micah, Akatay, Cem, and Binev, Peter. Physically motivated global alignment method for electron tomography. United States: N. p., 2015.
Web. doi:10.1186/s40679-015-0005-7.
Sanders, Toby, Prange, Micah, Akatay, Cem, & Binev, Peter. Physically motivated global alignment method for electron tomography. United States. https://doi.org/10.1186/s40679-015-0005-7
Sanders, Toby, Prange, Micah, Akatay, Cem, and Binev, Peter. Wed .
"Physically motivated global alignment method for electron tomography". United States. https://doi.org/10.1186/s40679-015-0005-7. https://www.osti.gov/servlets/purl/1214822.
@article{osti_1214822,
title = {Physically motivated global alignment method for electron tomography},
author = {Sanders, Toby and Prange, Micah and Akatay, Cem and Binev, Peter},
abstractNote = {Electron tomography is widely used for nanoscale determination of 3-D structures in many areas of science. Determining the 3-D structure of a sample from electron tomography involves three major steps: acquisition of sequence of 2-D projection images of the sample with the electron microscope, alignment of the images to a common coordinate system, and 3-D reconstruction and segmentation of the sample from the aligned image data. The resolution of the 3-D reconstruction is directly influenced by the accuracy of the alignment, and therefore, it is crucial to have a robust and dependable alignment method. In this paper, we develop a new alignment method which avoids the use of markers and instead traces the computed paths of many identifiable ‘local’ center-of-mass points as the sample is rotated. Compared with traditional correlation schemes, the alignment method presented here is resistant to cumulative error observed from correlation techniques, has very rigorous mathematical justification, and is very robust since many points and paths are used, all of which inevitably improves the quality of the reconstruction and confidence in the scientific results.},
doi = {10.1186/s40679-015-0005-7},
journal = {Advanced Structural and Chemical Imaging},
number = 1,
volume = 1,
place = {United States},
year = {Wed Apr 08 00:00:00 EDT 2015},
month = {Wed Apr 08 00:00:00 EDT 2015}
}
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