References
Araujo, Pedro, Christina Bornatici, and Marieke Heers. 2024.
“Recognising Open Research Data in Research Assessment: Overview
of Practices and Challenges,” May. https://doi.org/10.5281/ZENODO.11060207.
Bourget, Marie-Hélène, Lee Kamentsky, Satrajit S. Ghosh, Giacomo
Mazzamuto, Alberto Lazari, Christopher J. Markiewicz, Robert Oostenveld,
et al. 2022. “Microscopy-BIDS: An Extension to the Brain Imaging
Data Structure for Microscopy Data.” Frontiers in
Neuroscience 16. https://doi.org/10.1038/s41598-018-22181-4.
Broman, Karl W., and Kara H. Woo. 2018. “Data Organization in
Spreadsheets.” The American Statistician 72 (1): 2–10.
https://doi.org/10.1080/00031305.2017.1375989.
Fecher, Benedikt, and Sascha Friesike. 2014. “Open Science: One
Term, Five Schools of Thought.” In, edited by Sönke Bartling and
Sascha Friesike, 17–47. Cham: Springer International Publishing. https://doi.org/10.1007/978-3-319-00026-8_2.
Fraga Gonzalez, Gorka. n.d. “Reproducibility in Practice: Version
Control and Dynamic Reporting - shareCTD Schooling Event.” https://doi.org/10.5281/ZENODO.14754696.
Goldberg, Ilya G, Chris Allan, Jean-Marie Burel, Doug Creager, Andrea
Falconi, Harry Hochheiser, Josiah Johnston, Jeff Mellen, Peter K Sorger,
and Jason R Swedlow. 2005. “The Open Microscopy Environment (OME)
Data Model and XML File: Open Tools for Informatics and Quantitative
Analysis in Biological Imaging.” Genome Biology 6 (5):
R47. https://doi.org/10.1186/gb-2005-6-5-r47.
Gorgolewski, Krzysztof J., Tibor Auer, Vince D. Calhoun, R. Cameron
Craddock, Samir Das, Eugene P. Duff, Guillaume Flandin, et al. 2016.
“The Brain Imaging Data Structure, a Format for Organizing and
Describing Outputs of Neuroimaging Experiments.” Scientific
Data 3 (1): 160044. https://doi.org/10.1038/sdata.2016.44.
Hammer, Mathias, Maximiliaan Huisman, Alessandro Rigano, Ulrike Boehm,
James J. Chambers, Nathalie Gaudreault, Alison J. North, et al. 2021.
“Towards Community-Driven Metadata Standards for Light Microscopy:
Tiered Specifications Extending the OME Model.” Nature
Methods 18 (12): 1427–40. https://doi.org/10.1038/s41592-021-01327-9.
Hardwicke, Tom E., and John P. A. Ioannidis. 2018. “Mapping the
Universe of Registered Reports.” Nature Human Behaviour
2 (11): 793–96. https://doi.org/10.1038/s41562-018-0444-y.
Harvard Longwood Medical Area Research Data Management Working Group.
2021. “Electronic Lab Notebook Comparison Matrix,” May. https://doi.org/10.5281/ZENODO.4723753.
Held, Leonhard, and Simon Schwab. 2020. “Improving The
Reproducibility of Science.” Significance 17 (1): 10–11.
https://doi.org/10.1111/j.1740-9713.2020.01351.x.
Higgins, J. P T. 2003. “Measuring Inconsistency in
Meta-Analyses.” BMJ 327 (7414): 557560. https://doi.org/10.1136/bmj.327.7414.557.
Hofmann, Felix, Samuel Pawel, Melanie Röthlisberger, and Leonhard Held.
2023. “Primer: Digital Collaboration.” https://doi.org/10.5281/ZENODO.8354375.
Huebner, Marianne, Saskia Le Cessie, Carsten O. Schmidt, and Werner
Vach. 2018. “A Contemporary Conceptual Framework for Initial Data
Analysis.” Observational Studies 4 (1): 171–92. https://doi.org/10.1353/obs.2018.0014.
Milzow, Katrin, Martin von Arx, Cornélia Sommer, Julia Cahenzli, and
Lionel Perini. 2020. “Open Research Data: SNSF Monitoring Report
2017-2018.” https://doi.org/10.5281/zenodo.3618123.
Moore, Josh, Daniela Basurto-Lozada, Sébastien Besson, John Bogovic,
Jordão Bragantini, Eva M. Brown, Jean-Marie Burel, et al. 2023.
“OME-Zarr: A Cloud-Optimized Bioimaging File Format with
International Community Support.” Histochemistry and Cell
Biology 160 (3): 223–51. https://doi.org/10.1007/s00418-023-02209-1.
National Academies of Sciences, Engineering and Medicine. 2019.
Reproducibility and Replicability in Science. Washington, D.C.:
National Academies Press. https://doi.org/10.17226/25303.
Nosek, Brian A., Charles R. Ebersole, Alexander C. DeHaven, and David T.
Mellor. 2018. “The Preregistration Revolution.”
Proceedings of the National Academy of Sciences 115 (11):
2600–2606. https://doi.org/10.1073/pnas.1708274114.
Pampel, Heinz, Paul Vierkant, Frank Scholze, Roland Bertelmann, Maxi
Kindling, Jens Klump, Hans-Jürgen Goebelbecker, Jens Gundlach, Peter
Schirmbacher, and Uwe Dierolf. 2013. “Making Research Data
Repositories Visible: The Re3data.org Registry.” PLOS
ONE 8 (11): e78080. https://doi.org/10.1371/journal.pone.0078080.
Percie Du Sert, Nathalie, Viki Hurst, Amrita Ahluwalia, Sabina Alam,
Marc T. Avey, Monya Baker, William J. Browne, et al. 2020. “The
ARRIVE Guidelines 2.0: Updated Guidelines for Reporting Animal
Research*.” Journal of Cerebral Blood Flow &
Metabolism 40 (9): 1769–77. https://doi.org/10.1177/0271678X20943823.
Perkel, Jeffrey M. 2022. “Six Tips for Better
Spreadsheets.” Nature 608 (7921): 229–30. https://doi.org/10.1038/d41586-022-02076-1.
Pernet, Cyril, Claus Svarer, Ross Blair, John D. Van Horn, and Russell
A. Poldrack. 2023. “On the Long-Term Archiving of Research
Data.” Neuroinformatics 21 (2): 243–46. https://doi.org/10.1007/s12021-023-09621-x.
Ram, Karthik. 2013. “Git Can Facilitate Greater Reproducibility
and Increased Transparency in Science.” Source Code for
Biology and Medicine 8 (1): 7. https://doi.org/10.1186/1751-0473-8-7.
Sansone, Susanna Assunta, Peter McQuilton, Philippe Rocca-Serra,
Alejandra Gonzalez Beltran, Massimiliano Izzo, Allyson L. Lister, and
Milo Thurston. 2019. “FAIRsharing as a Community Approach to
Standards, Repositories and Policies.” Nature
Biotechnology 37 (4): 358–67. https://doi.org/10.1038/s41587-019-0080-8.
Sarkans, Ugis, Wah Chiu, Lucy Collinson, Michele C. Darrow, Jan
Ellenberg, David Grunwald, Jean-Karim Hériché, et al. 2021.
“REMBI: Recommended Metadata for Biological
Imagesenabling Reuse of Microscopy Data in Biology.”
Nature Methods 18 (12): 1418–22. https://doi.org/10.1038/s41592-021-01166-8.
The Turing Way Community. 2022. The Turing Way: A Handbook for
Reproducible, Ethical and Collaborative Research (1.0.2). Zenodo.
https://doi.org/10.5281/ZENODO.3233853.
Van Der Naald, Mira, Steven A J Chamuleau, Julia M L Menon, Wim De
Leeuw, Judith De Haan, Dirk J Duncker, and Kimberley Elaine Wever. 2022.
“Preregistration of Animal Research Protocols: Development and
3-Year Overview of Preclinicaltrials.eu.” BMJ Open
Science 6 (1). https://doi.org/10.1136/bmjos-2021-100259.
Welter, Danielle, Nick Juty, Philippe Rocca-Serra, Fuqi Xu, David
Henderson, Wei Gu, Jolanda Strubel, et al. 2023. “FAIR in Action -
a Flexible Framework to Guide FAIRification.” Scientific
Data 10 (1): 291. https://doi.org/10.1038/s41597-023-02167-2.
Wickham, Hadley. 2014. “Tidy Data.”
Journal of Statistical Software 59 (10). https://doi.org/10.18637/jss.v059.i10.
Wilkinson, Mark D., Michel Dumontier, IJsbrand Jan Aalbersberg,
Gabrielle Appleton, Myles Axton, Arie Baak, Niklas Blomberg, et al.
2016. “The FAIR Guiding Principles for Scientific Data Management
and Stewardship.” Scientific Data 3 (1): 160018. https://doi.org/10.1038/sdata.2016.18.