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.