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FAIR and scalable management of small-angle X-ray scattering data
A modular research data management toolbox based on the programming language Python, the widely used computing platform Jupyter Notebook, the standardized data exchange format for analytical data (AnIML) and the generic repository Dataverse has been established and applied to analyze small-angle X-r...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
International Union of Crystallography
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10077856/ https://www.ncbi.nlm.nih.gov/pubmed/37032968 http://dx.doi.org/10.1107/S1600576723001577 |
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author | Giess, Torsten Itzigehl, Selina Range, Jan Schömig, Richard Bruckner, Johanna R. Pleiss, Jürgen |
author_facet | Giess, Torsten Itzigehl, Selina Range, Jan Schömig, Richard Bruckner, Johanna R. Pleiss, Jürgen |
author_sort | Giess, Torsten |
collection | PubMed |
description | A modular research data management toolbox based on the programming language Python, the widely used computing platform Jupyter Notebook, the standardized data exchange format for analytical data (AnIML) and the generic repository Dataverse has been established and applied to analyze small-angle X-ray scattering (SAXS) data according to the FAIR data principles (findable, accessible, interoperable and reusable). The SAS-tools library is a community-driven effort to develop tools for data acquisition, analysis, visualization and publishing of SAXS data. Metadata from the experiment and the results of data analysis are stored as an AnIML document using the novel Python-native pyAnIML API. The AnIML document, measured raw data and plots resulting from the analysis are combined into an archive in OMEX format and uploaded to Dataverse using the novel easyDataverse API, which makes each data set accessible via a unique DOI and searchable via a structured metadata block. SAS-tools is applied to study the effects of alkyl chain length and counterions on the phase diagrams of alkyltrimethylammonium surfactants in order to demonstrate the feasibility and usefulness of a scalable data management workflow for experiments in physical chemistry. |
format | Online Article Text |
id | pubmed-10077856 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | International Union of Crystallography |
record_format | MEDLINE/PubMed |
spelling | pubmed-100778562023-04-07 FAIR and scalable management of small-angle X-ray scattering data Giess, Torsten Itzigehl, Selina Range, Jan Schömig, Richard Bruckner, Johanna R. Pleiss, Jürgen J Appl Crystallogr Computer Programs A modular research data management toolbox based on the programming language Python, the widely used computing platform Jupyter Notebook, the standardized data exchange format for analytical data (AnIML) and the generic repository Dataverse has been established and applied to analyze small-angle X-ray scattering (SAXS) data according to the FAIR data principles (findable, accessible, interoperable and reusable). The SAS-tools library is a community-driven effort to develop tools for data acquisition, analysis, visualization and publishing of SAXS data. Metadata from the experiment and the results of data analysis are stored as an AnIML document using the novel Python-native pyAnIML API. The AnIML document, measured raw data and plots resulting from the analysis are combined into an archive in OMEX format and uploaded to Dataverse using the novel easyDataverse API, which makes each data set accessible via a unique DOI and searchable via a structured metadata block. SAS-tools is applied to study the effects of alkyl chain length and counterions on the phase diagrams of alkyltrimethylammonium surfactants in order to demonstrate the feasibility and usefulness of a scalable data management workflow for experiments in physical chemistry. International Union of Crystallography 2023-03-21 /pmc/articles/PMC10077856/ /pubmed/37032968 http://dx.doi.org/10.1107/S1600576723001577 Text en © Torsten Giess et al. 2023 https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited. |
spellingShingle | Computer Programs Giess, Torsten Itzigehl, Selina Range, Jan Schömig, Richard Bruckner, Johanna R. Pleiss, Jürgen FAIR and scalable management of small-angle X-ray scattering data |
title | FAIR and scalable management of small-angle X-ray scattering data |
title_full | FAIR and scalable management of small-angle X-ray scattering data |
title_fullStr | FAIR and scalable management of small-angle X-ray scattering data |
title_full_unstemmed | FAIR and scalable management of small-angle X-ray scattering data |
title_short | FAIR and scalable management of small-angle X-ray scattering data |
title_sort | fair and scalable management of small-angle x-ray scattering data |
topic | Computer Programs |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10077856/ https://www.ncbi.nlm.nih.gov/pubmed/37032968 http://dx.doi.org/10.1107/S1600576723001577 |
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