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Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing
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Zeitschriftentitel: | Journal of Applied Crystallography |
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Personen und Körperschaften: | , , , , |
In: | Journal of Applied Crystallography, 46, 2013, 6, S. 1863-1873 |
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Sprache: | Unbestimmt |
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International Union of Crystallography (IUCr)
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author_facet |
Wan, Wei Sun, Junliang Su, Jie Hovmöller, Sven Zou, Xiaodong Wan, Wei Sun, Junliang Su, Jie Hovmöller, Sven Zou, Xiaodong |
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author |
Wan, Wei Sun, Junliang Su, Jie Hovmöller, Sven Zou, Xiaodong |
spellingShingle |
Wan, Wei Sun, Junliang Su, Jie Hovmöller, Sven Zou, Xiaodong Journal of Applied Crystallography Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing General Biochemistry, Genetics and Molecular Biology |
author_sort |
wan, wei |
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Wan, Wei Sun, Junliang Su, Jie Hovmöller, Sven Zou, Xiaodong 0021-8898 International Union of Crystallography (IUCr) General Biochemistry, Genetics and Molecular Biology http://dx.doi.org/10.1107/s0021889813027714 <jats:p>Implementation of a computer program package for automated collection and processing of rotation electron diffraction (RED) data is described. The software package contains two computer programs:<jats:italic>RED</jats:italic>data collection and<jats:italic>RED</jats:italic>data processing. The<jats:italic>RED</jats:italic>data collection program controls the transmission electron microscope and the camera. Electron beam tilts at a fine step (0.05–0.20°) are combined with goniometer tilts at a coarse step (2.0–3.0°) around a common tilt axis, which allows a fine relative tilt to be achieved between the electron beam and the crystal in a large tilt range. An electron diffraction (ED) frame is collected at each combination of beam tilt and goniometer tilt. The<jats:italic>RED</jats:italic>data processing program processes three-dimensional ED data generated by the<jats:italic>RED</jats:italic>data collection program or by other approaches. It includes shift correction of the ED frames, peak hunting for diffraction spots in individual ED frames and identification of these diffraction spots as reflections in three dimensions. Unit-cell parameters are determined from the positions of reflections in three-dimensional reciprocal space. All reflections are indexed, and finally a list with<jats:italic>hkl</jats:italic>indices and intensities is output. The data processing program also includes a visualizer to view and analyse three-dimensional reciprocal lattices reconstructed from the ED frames. Details of the implementation are described. Data collection and data processing with the software<jats:italic>RED</jats:italic>are demonstrated using a calcined zeolite sample, silicalite-1. The structure of the calcined silicalite-1, with 72 unique atoms, could be solved from the RED data by routine direct methods.</jats:p> Three-dimensional rotation electron diffraction: software<i>RED</i>for automated data collection and data processing Journal of Applied Crystallography |
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10.1107/s0021889813027714 |
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International Union of Crystallography (IUCr), 2013 |
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International Union of Crystallography (IUCr), 2013 |
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0021-8898 |
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International Union of Crystallography (IUCr) (CrossRef) |
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publishDateSort |
2013 |
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International Union of Crystallography (IUCr) |
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ai |
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series |
Journal of Applied Crystallography |
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49 |
title |
Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_unstemmed |
Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_full |
Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_fullStr |
Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_full_unstemmed |
Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_short |
Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_sort |
three-dimensional rotation electron diffraction: software<i>red</i>for automated data collection and data processing |
topic |
General Biochemistry, Genetics and Molecular Biology |
url |
http://dx.doi.org/10.1107/s0021889813027714 |
publishDate |
2013 |
physical |
1863-1873 |
description |
<jats:p>Implementation of a computer program package for automated collection and processing of rotation electron diffraction (RED) data is described. The software package contains two computer programs:<jats:italic>RED</jats:italic>data collection and<jats:italic>RED</jats:italic>data processing. The<jats:italic>RED</jats:italic>data collection program controls the transmission electron microscope and the camera. Electron beam tilts at a fine step (0.05–0.20°) are combined with goniometer tilts at a coarse step (2.0–3.0°) around a common tilt axis, which allows a fine relative tilt to be achieved between the electron beam and the crystal in a large tilt range. An electron diffraction (ED) frame is collected at each combination of beam tilt and goniometer tilt. The<jats:italic>RED</jats:italic>data processing program processes three-dimensional ED data generated by the<jats:italic>RED</jats:italic>data collection program or by other approaches. It includes shift correction of the ED frames, peak hunting for diffraction spots in individual ED frames and identification of these diffraction spots as reflections in three dimensions. Unit-cell parameters are determined from the positions of reflections in three-dimensional reciprocal space. All reflections are indexed, and finally a list with<jats:italic>hkl</jats:italic>indices and intensities is output. The data processing program also includes a visualizer to view and analyse three-dimensional reciprocal lattices reconstructed from the ED frames. Details of the implementation are described. Data collection and data processing with the software<jats:italic>RED</jats:italic>are demonstrated using a calcined zeolite sample, silicalite-1. The structure of the calcined silicalite-1, with 72 unique atoms, could be solved from the RED data by routine direct methods.</jats:p> |
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author | Wan, Wei, Sun, Junliang, Su, Jie, Hovmöller, Sven, Zou, Xiaodong |
author_facet | Wan, Wei, Sun, Junliang, Su, Jie, Hovmöller, Sven, Zou, Xiaodong, Wan, Wei, Sun, Junliang, Su, Jie, Hovmöller, Sven, Zou, Xiaodong |
author_sort | wan, wei |
container_issue | 6 |
container_start_page | 1863 |
container_title | Journal of Applied Crystallography |
container_volume | 46 |
description | <jats:p>Implementation of a computer program package for automated collection and processing of rotation electron diffraction (RED) data is described. The software package contains two computer programs:<jats:italic>RED</jats:italic>data collection and<jats:italic>RED</jats:italic>data processing. The<jats:italic>RED</jats:italic>data collection program controls the transmission electron microscope and the camera. Electron beam tilts at a fine step (0.05–0.20°) are combined with goniometer tilts at a coarse step (2.0–3.0°) around a common tilt axis, which allows a fine relative tilt to be achieved between the electron beam and the crystal in a large tilt range. An electron diffraction (ED) frame is collected at each combination of beam tilt and goniometer tilt. The<jats:italic>RED</jats:italic>data processing program processes three-dimensional ED data generated by the<jats:italic>RED</jats:italic>data collection program or by other approaches. It includes shift correction of the ED frames, peak hunting for diffraction spots in individual ED frames and identification of these diffraction spots as reflections in three dimensions. Unit-cell parameters are determined from the positions of reflections in three-dimensional reciprocal space. All reflections are indexed, and finally a list with<jats:italic>hkl</jats:italic>indices and intensities is output. The data processing program also includes a visualizer to view and analyse three-dimensional reciprocal lattices reconstructed from the ED frames. Details of the implementation are described. Data collection and data processing with the software<jats:italic>RED</jats:italic>are demonstrated using a calcined zeolite sample, silicalite-1. The structure of the calcined silicalite-1, with 72 unique atoms, could be solved from the RED data by routine direct methods.</jats:p> |
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spelling | Wan, Wei Sun, Junliang Su, Jie Hovmöller, Sven Zou, Xiaodong 0021-8898 International Union of Crystallography (IUCr) General Biochemistry, Genetics and Molecular Biology http://dx.doi.org/10.1107/s0021889813027714 <jats:p>Implementation of a computer program package for automated collection and processing of rotation electron diffraction (RED) data is described. The software package contains two computer programs:<jats:italic>RED</jats:italic>data collection and<jats:italic>RED</jats:italic>data processing. The<jats:italic>RED</jats:italic>data collection program controls the transmission electron microscope and the camera. Electron beam tilts at a fine step (0.05–0.20°) are combined with goniometer tilts at a coarse step (2.0–3.0°) around a common tilt axis, which allows a fine relative tilt to be achieved between the electron beam and the crystal in a large tilt range. An electron diffraction (ED) frame is collected at each combination of beam tilt and goniometer tilt. The<jats:italic>RED</jats:italic>data processing program processes three-dimensional ED data generated by the<jats:italic>RED</jats:italic>data collection program or by other approaches. It includes shift correction of the ED frames, peak hunting for diffraction spots in individual ED frames and identification of these diffraction spots as reflections in three dimensions. Unit-cell parameters are determined from the positions of reflections in three-dimensional reciprocal space. All reflections are indexed, and finally a list with<jats:italic>hkl</jats:italic>indices and intensities is output. The data processing program also includes a visualizer to view and analyse three-dimensional reciprocal lattices reconstructed from the ED frames. Details of the implementation are described. Data collection and data processing with the software<jats:italic>RED</jats:italic>are demonstrated using a calcined zeolite sample, silicalite-1. The structure of the calcined silicalite-1, with 72 unique atoms, could be solved from the RED data by routine direct methods.</jats:p> Three-dimensional rotation electron diffraction: software<i>RED</i>for automated data collection and data processing Journal of Applied Crystallography |
spellingShingle | Wan, Wei, Sun, Junliang, Su, Jie, Hovmöller, Sven, Zou, Xiaodong, Journal of Applied Crystallography, Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing, General Biochemistry, Genetics and Molecular Biology |
title | Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_full | Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_fullStr | Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_full_unstemmed | Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_short | Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
title_sort | three-dimensional rotation electron diffraction: software<i>red</i>for automated data collection and data processing |
title_unstemmed | Three-dimensional rotation electron diffraction: softwareREDfor automated data collection and data processing |
topic | General Biochemistry, Genetics and Molecular Biology |
url | http://dx.doi.org/10.1107/s0021889813027714 |