Open Science. Guiding principles and best practices

Principles & declarations

• Budapest Open Access Initiative (2001)
• Berlin Declaration (2003)
• The OKF Open Definition (2005)
• Panton Principles (2009)
• Denton Declaration (2012)
• San Francisco Declaration on Research Assessment (DORA) (2012)
• Bouchout Declaration (2014)
• Science Europe Principles on Open Access to Research Publications
• Amsterdam Call for Action on Open Science (2016)
• FAIR Guiding Principles (2016)
• cOAlition S (2018)

EU policy and strategies

• EU’s open science policy
• Open science monitor
• Open Research Europe)
• Reproducibility of scientific results in the EU
• OpenAIRE
• ORION
• European Open Science Cloud (EOSC)

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• Guidance and best practices for sharing sensitive data are necessarily region-specific because of differing regulations.
  • The CESSDA Expert Tour Guide on Data Management provides information and practical examples on how to share personal data and on copyright and database issues across the European countries.
  • The CESSDA Expert Tour Guide on Data Management provides as well an updated overview on EU diversity on data protection.

Organizations

• Open Knowledge Foundation
• The Open Data Institute
• Free Software Foundation
• Creative Commons
• Center for Open Science & OSF
• The Open Data Handbook
• 5 ★ Open Data
• Accelerate Open Science

Training & workshops

• FOSTER
  • The Open Science Training Handbook
• OPEN SCIENCE MOOC
• CESSDA Data Management Expert Guide
• The Turing Way - Guide for Reproducible Research
  • Illustrations by Scriberia
• Software Carpentry
  • http://swcarpentry.github.io/r-novice-gapminder/
• Data Carpentry
  • https://datacarpentry.org/semester-biology/
  • https://datacarpentry.org/R-ecology-lesson/index.html
• Happy Git and GitHub for the useR
• How-To-Do-Archaeological-Science-Using-R
• Reproducible analysis and Research Transparency Workshop
• GitHub Education

Open Access

• Sherpa Romeo
• Directory of Open Access Journals (DOAJ)
• Directory of Open Access Books (DOAB)

Open Data repositories

• Registry of Research Data Repositories
• Open Context
  • Micromorphology samples for an Upper Paleolithic cave site in the Ach Valley of Germany
• MorphoSource
  • Veneziano et al. 2021. Novel strategies for the characterization of cancellous bone morphology: Virtual isolation and analysis. American Journal of Physical Anthropology 1–11
• Morphobank - a web application for collaborative evolutionary research, specifically phylogenetic systematics or cladistics, involving morphology. (Source)
• Morphbank - an image database documenting a range of specimen-based research, including comparative anatomy and taxonomy. Funded by the National Science Foundation. (Source)
• Genbank - the NIH sequence database comprising an annotated collection of all publicly available DNA sequences. Part of the International Nucleotide Sequence Database Collaboration. (Source) *

GitHub repositories

• Awesome Reproducible Research: A curated list of reproducible research case studies, projects, tutorials, and media
• Initiative for Statistical Analysis in Archaeology Kiel (ISAAK)
• Römisch-Germanisches Zentralmuseum Mainz (RGZM)

Talks & Documentaries

• The Internet’s Own Boy: The Story of Aaron Swartz
• Paywall: The Business of Scholarship
• Solutions: Open Science
• The Science of Collective Discovery

References

• Archaeology 2.0
• Lake, M. 2012. Open Archaeology. World Archaeology44(4):471–478
  • https://www.youtube.com/watch?v=aaNzQYeJn0E
• Archaeology and Digital comunication

Numerous tools have been developed in aid of reproducible research, also in fact specifically in relation to archaeology (Carlson, 2017; Marwick, 2017; Marwick et al., 2018, 2017; Marwick and Birch, 2018).

• Opening Science. The Evolving Guide on How the Internet is Changing Research, Collaboration and Scholarly Publishing - dynamic version

• Open Science: What, Why, and How

• Nosek, Brian A, George Alter, George C Banks, Denny Borsboom, Sara D Bowman, Steven J Breckler, Stuart Buck, et al. 2015. “Promoting an Open Research Culture.” Science 348 (6242). American Association for the Advancement of Science: 1422–5.

• Munafò, M., Nosek, B., Bishop, D. et al. A manifesto for reproducible science. Nat Hum Behav 1, 0021 (2017)

• Wilson G, Aruliah DA, Brown CT, Chue Hong NP, Davis M, Guy RT, et al. (2014) Best Practices for Scientific Computing. PLoS Biol 12(1): e1001745. https://doi.org/10.1371/journal.pbio.1001745

• Leible et al. 2019. A Review on Blockchain Technology and Blockchain Projects Fostering Open Science. https://doi.org/10.3389/fbloc.2019.00016

• https://link.springer.com/article/10.1007/s11948-019-00094-3

• Conversations in Human Evolution: Dr. E. Crema
• Conversations in Human Evolution: Prof. F. Riede

References (B. Marwick)

• Marwick, B. 2020. Open access to publications to expand participation in archaeology. Norwegian Archaeological Review
• Schmidt, S.C. & Marwick, B. 2020. Tool-Driven Revolutions in Archaeological Science. Journal of Computer Applications in Archaeology
• Marwick, B., Wang, L.-Y., Robinson, R., & Loiselle, H. 2019. How to Use Replication Assignments for Teaching Integrity in Empirical Archaeology. Advances in Archaeological Practice
• Marwick, B., & Birch, S. 2018. A Standard for the Scholarly Citation of Archaeological Data as an Incentive to Data Sharing. Advances in Archaeological Practice
• Marwick, B., Boettiger, C., & Mullen, L. 2018. Packaging data analytical work reproducibly using R (and friends). The American Statistician
• Marwick, B. et al. 2017. Open science in archaeology. SAA Archaeological Record
• Marwick, B. 2017. Computational reproducibility in archaeological research: Basic principles and a case study of their implementation. Journal of Archaeological Method and Theory
• Marwick, B. 2017. Using R and Related Tools for Reproducible Research in Archaeology. In Kitzes, J., Turek, D., & Deniz, F. (Eds.) The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences
• Ram, K. & Marwick, B. 2017. Building Towards a Future Where Reproducible, Open Science is the Norm. In Kitzes, J., Turek, D., & Deniz, F. (Eds.) The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences