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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...

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Autores principales: Giess, Torsten, Itzigehl, Selina, Range, Jan, Schömig, Richard, Bruckner, Johanna R., Pleiss, Jürgen
Formato: Online Artículo Texto
Lenguaje:English
Publicado: International Union of Crystallography 2023
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.
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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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