Coline Royaux, Jean-Baptiste Mihoub, Marie Jossé, Dominique Pelletier, Olivier Norvez, Yves Reecht, Anne Fouilloux, Helena Rasche, Saskia Hiltemann, Bérénice Batut, Marc Eléaume, Pauline Seguineau, Guillaume Massé, Alan Amossé, Claire Bissery, Romain Lorrilliere, Alexis Martin, Yves Bas, Thimothée Virgoulay, Valentin Chambon, Elie Arnaud, Elisa Michon, Clara Urfer, Eloïse Trigodet, Marie Delannoy, Gregoire Loïs, Romain Julliard, Björn Grüning, Yvan Le BrasPlease use the format "First name initials family name" as in "Marie S. Curie, Niels H. D. Bohr, Albert Einstein, John R. R. Tolkien, Donna T. Strickland"
<p>Numerous conceptual frameworks exist for best practices in research data and analysis (e.g. Open Science and FAIR principles). In practice, there is a need for further progress to improve transparency, reproducibility, and confidence in ecology. Here, we propose a practical and operational framework for researchers and experts in ecology to achieve best practices for building analytical procedures from individual research projects to production-level analytical pipelines. We introduce the concept of atomisation to identify analytical steps which support generalisation by allowing us to go beyond single analyses. The term atomisation is employed to convey the idea of single analytical steps as “atoms” composing an analytical procedure. When generalised, “atoms” can be used in more than a single case analysis. These guidelines were established during the development of the Galaxy-Ecology initiative, a web platform dedicated to data analysis in ecology. Galaxy-Ecology allows us to demonstrate a way to reach higher levels of reproducibility in ecological sciences by increasing the accessibility and reusability of analytical workflows once atomised and generalised.</p>
Nick Isaac [njbi@ceh.ac.uk], Elisa Bayraktarov [e.bayraktarov@griffith.edu.au], Sarah Cohen-Boulakia [cohen@lri.fr], Bertram Ludaescher [ludaesch@illinois.edu], Laura Russell [larussell@gbif.org], Margaret O’Brien [margaret.obrien@ucsb.edu], Carl Boettiger [cboettig@gmail.com], Matthew B. Jones [jones@nceas.ucsb.edu], Dimitris Koureas [d.koureas@nhm.ac.uk], Nick Isaac suggested: I plan to conduct the review jointly with a postdoc in our group, Simon Rolph., Nick Isaac suggested: Natalie Briscoe <nbriscoe@unimelb.edu.au>
No need for them to be recommenders of PCIEcology. Please do not suggest reviewers for whom there might be a conflict of interest. Reviewers are not allowed to review preprints written by close colleagues (with whom they have published in the last four years, with whom they have received joint funding in the last four years, or with whom they are currently writing a manuscript, or submitting a grant proposal), or by family members, friends, or anyone for whom bias might affect the nature of the review - see the code of conduct
