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A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering

X-ray scattering experiments at synchrotron sources are characterized by large and constantly increasing amounts of data. The great number of files generated during a synchrotron experiment is often a limiting factor in the analysis of the data, since appropriate software is rarely available to perf...

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Autores principales: Benecke, Gunthard, Wagermaier, Wolfgang, Li, Chenghao, Schwartzkopf, Matthias, Flucke, Gero, Hoerth, Rebecca, Zizak, Ivo, Burghammer, Manfred, Metwalli, Ezzeldin, Müller-Buschbaum, Peter, Trebbin, Martin, Förster, Stephan, Paris, Oskar, Roth, Stephan V., Fratzl, Peter
Formato: Online Artículo Texto
Lenguaje:English
Publicado: International Union of Crystallography 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4180741/
https://www.ncbi.nlm.nih.gov/pubmed/25294982
http://dx.doi.org/10.1107/S1600576714019773
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author Benecke, Gunthard
Wagermaier, Wolfgang
Li, Chenghao
Schwartzkopf, Matthias
Flucke, Gero
Hoerth, Rebecca
Zizak, Ivo
Burghammer, Manfred
Metwalli, Ezzeldin
Müller-Buschbaum, Peter
Trebbin, Martin
Förster, Stephan
Paris, Oskar
Roth, Stephan V.
Fratzl, Peter
author_facet Benecke, Gunthard
Wagermaier, Wolfgang
Li, Chenghao
Schwartzkopf, Matthias
Flucke, Gero
Hoerth, Rebecca
Zizak, Ivo
Burghammer, Manfred
Metwalli, Ezzeldin
Müller-Buschbaum, Peter
Trebbin, Martin
Förster, Stephan
Paris, Oskar
Roth, Stephan V.
Fratzl, Peter
author_sort Benecke, Gunthard
collection PubMed
description X-ray scattering experiments at synchrotron sources are characterized by large and constantly increasing amounts of data. The great number of files generated during a synchrotron experiment is often a limiting factor in the analysis of the data, since appropriate software is rarely available to perform fast and tailored data processing. Furthermore, it is often necessary to perform online data reduction and analysis during the experiment in order to interactively optimize experimental design. This article presents an open-source software package developed to process large amounts of data from synchrotron scattering experiments. These data reduction processes involve calibration and correction of raw data, one- or two-dimensional integration, as well as fitting and further analysis of the data, including the extraction of certain parameters. The software, DPDAK (directly programmable data analysis kit), is based on a plug-in structure and allows individual extension in accordance with the requirements of the user. The article demonstrates the use of DPDAK for on- and offline analysis of scanning small-angle X-ray scattering (SAXS) data on biological samples and microfluidic systems, as well as for a comprehensive analysis of grazing-incidence SAXS data. In addition to a comparison with existing software packages, the structure of DPDAK and the possibilities and limitations are discussed.
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spelling pubmed-41807412014-10-07 A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering Benecke, Gunthard Wagermaier, Wolfgang Li, Chenghao Schwartzkopf, Matthias Flucke, Gero Hoerth, Rebecca Zizak, Ivo Burghammer, Manfred Metwalli, Ezzeldin Müller-Buschbaum, Peter Trebbin, Martin Förster, Stephan Paris, Oskar Roth, Stephan V. Fratzl, Peter J Appl Crystallogr Computer Programs X-ray scattering experiments at synchrotron sources are characterized by large and constantly increasing amounts of data. The great number of files generated during a synchrotron experiment is often a limiting factor in the analysis of the data, since appropriate software is rarely available to perform fast and tailored data processing. Furthermore, it is often necessary to perform online data reduction and analysis during the experiment in order to interactively optimize experimental design. This article presents an open-source software package developed to process large amounts of data from synchrotron scattering experiments. These data reduction processes involve calibration and correction of raw data, one- or two-dimensional integration, as well as fitting and further analysis of the data, including the extraction of certain parameters. The software, DPDAK (directly programmable data analysis kit), is based on a plug-in structure and allows individual extension in accordance with the requirements of the user. The article demonstrates the use of DPDAK for on- and offline analysis of scanning small-angle X-ray scattering (SAXS) data on biological samples and microfluidic systems, as well as for a comprehensive analysis of grazing-incidence SAXS data. In addition to a comparison with existing software packages, the structure of DPDAK and the possibilities and limitations are discussed. International Union of Crystallography 2014-09-30 /pmc/articles/PMC4180741/ /pubmed/25294982 http://dx.doi.org/10.1107/S1600576714019773 Text en © Gunthard Benecke et al. 2014 http://creativecommons.org/licenses/by/2.0/uk/ This is an open-access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
spellingShingle Computer Programs
Benecke, Gunthard
Wagermaier, Wolfgang
Li, Chenghao
Schwartzkopf, Matthias
Flucke, Gero
Hoerth, Rebecca
Zizak, Ivo
Burghammer, Manfred
Metwalli, Ezzeldin
Müller-Buschbaum, Peter
Trebbin, Martin
Förster, Stephan
Paris, Oskar
Roth, Stephan V.
Fratzl, Peter
A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering
title A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering
title_full A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering
title_fullStr A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering
title_full_unstemmed A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering
title_short A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering
title_sort customizable software for fast reduction and analysis of large x-ray scattering data sets: applications of the new dpdak package to small-angle x-ray scattering and grazing-incidence small-angle x-ray scattering
topic Computer Programs
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4180741/
https://www.ncbi.nlm.nih.gov/pubmed/25294982
http://dx.doi.org/10.1107/S1600576714019773
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