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PUBLICATIONS

Alignment of Fiducial Marks in a Tomographic Tilt Series with an Unknown Rotation Axis

Published

Author(s)

Zachary H. Levine, Peter Volkovitsky, Howard Hung

Abstract

Alignment for tomography using a transmission electron microscopy frequently uses colloidal gold particles as fiducial reference marks. Typically, there is an implicit assumption that the tilt axis of the tomographic series is orthogonal to the beam direction. However, this may not be true, either intentionally, if a tilt-rotate stage is used, or unintentionally, because of mechanical errors in the rotation stage or the sample fixture. Here, we provide a computer code which takes as input a set of two-dimensional (2D) observations of fiducial reference marks at various tilt angles and the values of those tilt angles. It produces as output a three-dimensional model of the observations, 2D shifts for each view, and the tilt axis direction.
Citation
Computer Physics Communications
Volume
176
Issue
12
Pub Type
Journals

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Keywords

High Performance Computing and Visualization Group, scientific visualization
Visualization research, Image and signal processing, Electron physics and Optical physics and communications

Citation

Levine, Z. , Volkovitsky, P. and Hung, H. (2007), Alignment of Fiducial Marks in a Tomographic Tilt Series with an Unknown Rotation Axis, Computer Physics Communications, [online], https://tsapps.nist.gov/publication/get_pdf.cfm?pub_id=906668 (Accessed October 14, 2025)

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Created April 1, 2007, Updated February 19, 2017
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