
Kadi4Mat: A Research Data Infrastructure for Materials Science
References
- Afgan, E, et al. July 2, 2018. The Galaxy Platform for Accessible, Reproducible and Collaborative Biomedical Analyses: 2018 Update. Nucleic Acids Research, 46(W1): W537–W544. DOI: 10.1093/nar/gky379
- Amorim, RC, et al. Nov. 2017. A Comparison of Research Data Management Platforms: Architecture, Flexible Metadata and Interoperability. Universal Access in the Information Society, 16(4): 851–862. DOI: 10.1007/s10209-016-0475-y
- Bird, CL, Willoughby, C and Frey, JG. 2013. Laboratory Notebooks in the Digital Era: The Role of ELNs in Record Keeping for Chemistry and Other Sciences. Chemical Society Reviews, 42(20): 8157. DOI: 10.1039/c3cs60122f
- Brandt,
N. 2020.
Kadi4Mat – Karlsruhe Data Infrastructure for Materials
Science. URL:
https://kadi.iam-cms.kit.edu (visited on Sept. 30, 2020). - Brandt, N, et al. Oct. 16, 2020. IAM-CMS/Kadi: Kadi4Mat. Version 0.2.0. Zenodo. DOI: 10.5281/ZENODO.4088270
- Cantor, S and Scavo, T. 2005. Shibboleth Architecture. Protocols and Profiles, 10: 16. DOI: 10.26869/TI.66.1
- CARPi, N, Minges, A and Piel, M. Apr. 14, 2017. eLabFTW: An Open Source Laboratory Notebook for Research Labs. The Journal of Open Source Software, 2(12): 146. DOI: 10.21105/joss.00146
- Carusi, A and Reimer, T. Jan. 2010. Virtual Research Environment Collaborative Landscape Study. JISC Report.
- CKAN Association.
2014. Ckan – The Open Source Data Portal
Software. URL:
https://ckan.org/ (visited on May 19, 2020). - DataCite Metadata Working Group. 2019. DataCite Metadata Schema Documentation for the Publication and Citation of Research Data v4.3. Version 4.3. DataCite.
- Django Software
Foundation. 2005. Django – The Web
Framework for Perfectionists with Deadlines. URL:
https://www.djangoproject.com/ (visited on May 25, 2020). - Draxl, C and Scheffler, M. Sept. 2018. NOMAD: The FAIR Concept for Big Data-Driven Materials Science. MRS Bulletin 43(9): 676–682. DOI: 10.1557/mrs.2018.208
- Elastic,
NV. 2010.
Elasticsearch – The Official Distributed Search &
Analytics Engine. URL:
https://www.elastic.co/elasticsearch (visited on June 2, 2020). - Elliott, MH. 2009. Thinking beyond ELN. Scientific computing, 26(6): 6–10.
- European Materials Modelling
Council. 2019. European Materials and
Modelling Ontology. URL:
https://github.com/emmo-repo (visited on May 24, 2020). - European Organization For Nuclear
Research. 2016. Invenio – Open Source
Framework for Large-Scale Digital Repositories. URL:
https://invenio-software.org/ (visited on May 19, 2020). - European Organization For Nuclear Research & OpenAIRE. 2013. Zenodo. DOI: 10.25495/7GXK-RD71
- Fielding, RT and Taylor, RN. 2000. Architectural Styles and the Design of Network-Based Software Architectures. Vol. 7. Irvine: University of California.
- Ghiringhelli, LM, et al. Dec. 2017. Towards Efficient Data Exchange and Sharing for Big-Data Driven Materials Science: Metadata and Data Formats. npj Computational Materials 3(1). DOI: 10.1038/s41524-017-0048-5
- Greenberg, J, et al. Nov. 30, 2009. A Metadata Best Practice for a Scientific Data Repository. Journal of Library Metadata, 9(3–4): 194–212. DOI: 10.1080/19386380903405090
- Hawker, CD. Dec. 2007. Laboratory Automation: Total and Subtotal. Clinics in Laboratory Medicine, 27(4): 749–770. DOI: 10.1016/j.cll.2007.07.010
- Hey, AJG, (ed.). 2009. The Fourth Paradigm: Data-Intensive Scientific Discovery. Redmond, Washington: Microsoft Research. pp. 251.
- Hey,
T and
Trefethen,
A. Mar.
11, 2003.
The Data Deluge: An e-Science Perspective . In: Berman, F, Fox, G and Hey, T (eds.), Wiley Series in Communications Networking & Distributed Systems. Chichester, UK: John Wiley & Sons, Ltd. pp. 809–824. DOI: 10.1002/0470867167.ch36 - Hill, J, et al. May 2016. Materials Science with Large-Scale Data and Informatics: Unlocking New Opportunities. MRS Bulletin, 41(5): 399–409. DOI: 10.1557/mrs.2016.93
- Jain, A, et al. July 2013. Commentary: The Materials Project: A Materials Genome Approach to Accelerating Materials Innovation. APL Materials, 1(1): 011002. DOI: 10.1063/1.4812323
- King, G. Nov. 2007. An Introduction to the Dataverse Network as an Infrastructure for Data Sharing. Sociological Methods & Research, 36(2): 173–199. DOI: 10.1177/0049124107306660
- Kluyver,
T, et al. 2016.
Jupyter Notebooks – a Publishing Format for Reproducible Computational Workflows . In: Loizides, F and Scmidt, B (eds.), Positioning and Power in Academic Publishing: Players, Agents and Agendas. Netherlands: IOS Press. pp. 87–90. DOI: 10.3233/978-1-61499-649-1-87 - Naughton, L and Kernohan, D. Mar. 7, 2016. Making Sense of Journal Research Data Policies. Insights the UKSG journal, 29(1): 84–89. DOI: 10.1629/uksg.284
- Open Archives
Initiative. 2015. Open Archives Initiative
Protocol for Metadata Harvesting. URL:
http://www.openarchives.org/pmh/ (visited on May 25, 2020). - P. Bryan Heidorn. 2008. Shedding Light on the Dark Data in the Long Tail of Science. Library Trends, 57(2): 280–299. DOI: 10.1353/lib.0.0036
- Pampel, H, et al. Nov. 4, 2013. Making Research Data Repositories Visible: The Re3data.Org Registry. In: Suleman, H (ed.), PLoS ONE, 8(11): e78080. DOI: 10.1371/journal.pone.0078080
- PostgreSQL Global Development
Group. 1996. PostgreSQL: The World’s
Most Advanced Open Source Database. URL:
https://www.postgresql.org/ (visited on Sept. 30, 2020). - Potthoff, J, et al. Mar. 2019. Procedures for Systematic Capture and Management of Analytical Data in Academia. In: Analytica Chimica Acta: X, 1: 100007. DOI: 10.1016/j.acax.2019.100007
- Rubacha, M, Rattan, AK and Hosselet, SC. Feb. 2011. A Review of Electronic Laboratory Notebooks Available in the Market Today. Journal of Laboratory Automation, 16(1): 90–98. DOI: 10.1016/j.jala.2009.01.002
- Sandfeld, S, et al. 2018. Strategiepapier – Digitale Transformation in der Materialwissenschaft und Werkstofftechnik.
- Schembera, B and Iglezakis, D. 2020. EngMeta: Metadata for Computational Engineering. International Journal of Metadata, Semantics and Ontologies, 14(1): 26. DOI: 10.1504/IJMSO.2020.107792
- Schindelin, J, et al. July 2015. The ImageJ Ecosystem: An Open Platform for Biomedical Image Analysis. Molecular Reproduction and Development, 82(7–8): 518–529. DOI: 10.1002/mrd.22489
- Schoof, E and Brandt, N. Oct. 16, 2020. IAM-CMS/Kadi-Apy: Kadi4Mat API Library. Version 0.2.1. Zenodo. DOI: 10.5281/ZENODO.4088276
- SciNote LLC
2015. SciNote – Electronic Lab Notebook &
Inventory Management. URL:
https://www.scinote.net/ (visited on May 21, 2020). - Smith, M, et al. Jan. 2003. DSpace: An Open Source Dynamic Digital Repository. D-Lib Magazine, 9(1). DOI: 10.1045/january2003-smith
- Taylor, KT. 2006. The Status of Electronic Laboratory Notebooks for Chemistry and Biology. Current Opinion in Drug Discovery and Development, 9(3): 348.
- The FAIRsharing Community, et al. Apr. 2019. FAIRsharing as a Community Approach to Standards, Repositories and Policies. Nature Biotechnology, 37(4): 358–367. DOI: 10.1038/s41587-019-0080-8
- The MathWorks, Inc.
2021. MATLAB – MathWorks. URL:
https://www.mathworks.com/products/matlab.html (visited on Jan. 19, 2021). - The Pallets Projects.
2015. Flask – The Pallets Projects. URL:
https://palletsprojects.com/p/flask/ (visited on May 25, 2020). - Tremouilhac, P, et al. Dec. 2017. Chemotion ELN: An Open Source Electronic Lab Notebook for Chemists in Academia. Journal of Cheminformatics, 9(1). DOI: 10.1186/s13321-017-0240-0
- Vue Core Development
Team. 2014. Vue.Js – The Progressive
JavaScript Framework. URL:
https://vuejs.org/ (visited on May 25, 2020). - Wilkinson, MD, et al. Dec. 2016. The FAIR Guiding Principles for Scientific Data Management and Stewardship. Scientific Data, 3(1). DOI: 10.1038/sdata.2016.18
- Wolstencroft, K, et al. July 1, 2013. The Taverna Workflow Suite: Designing and Executing Workflows of Web Services on the Desktop, Web or in the Cloud. Nucleic Acids Research, 41(W1): W557–W561. DOI: 10.1093/nar/gkt328
- Zschumme, P. Jan. 15, 2021a. IAM-CMS/Process-Engine. Version 0.1.0. Zenodo. DOI: 10.5281/ZENODO.4442563
- Zschumme, P. Jan. 15, 2021b. IAM-CMS/Process-Manager. Version 0.1.0. Zenodo. DOI: 10.5281/ZENODO.4442553
- Zschumme, P, et al. Oct. 16, 2020. IAM-CMS/Workflow-Nodes. Version 0.1.0. Zenodo. DOI: 10.5281/ZENODO.4094719
DOI: https://doi.org/10.5334/dsj-2021-008 | Journal eISSN: 1683-1470
Language: English
Page range: 8 - 8
Submitted on: Oct 16, 2020
Accepted on: Jan 27, 2021
Published on: Feb 10, 2021
Published by: Ubiquity Press
In partnership with: Paradigm Publishing Services
Publication frequency: 1 issue per year
Keywords:
© 2021 Nico Brandt, Lars Griem, Christoph Herrmann, Ephraim Schoof, Giovanna Tosato, Yinghan Zhao, Philipp Zschumme, Michael Selzer, published by Ubiquity Press
This work is licensed under the Creative Commons Attribution 4.0 License.