Bibliographie
Le texte intégral de certains articles cités n’est pas accessible en accès ouvert.
Dans ce cas, nous vous invitons à vous rapprocher des bibliothécaires de votre structure (laboratoire, université) pour en savoir plus sur les abonnements en cours ou les services de prêt entre bibliothèque.
Nous vous signalons quelques outils pour rechercher de manière légale la version en libre accès d’un article :
Abelson, Harold, Gerald Jay Sussman, Julie Sussman, and Alan J. Perlis. 1996. Structure and Interpretation of Computer Programs. Cambridge, Etats-Unis d’Amérique: MIT Press.
Adlin, Tamara, and John Pruitt. 2010. The Essential Persona Lifecycle: Your Guide to Building and Using Personas. Elsevier. doi:10.1016/C2009-0-62475-2.
Arnal, Florent, Lionel Bombrun, Jean-Pierre Da Costa, Cécile Dantzer, Robin Genuer, Marthe-Aline Jutand, Marie Lebreton, Sébastien Moutault, Jérôme Saracco, and Raphaëlle Savoire. 2019. “Begin’R.” Begin’R. http://beginr.u-bordeaux.fr/.
Arnold, Douglas N. 2000. “The Patriot Missile Failure.” Douglas N. Arnold McKnight, Presidential Professor of Mathematics. http://www-users.math.umn.edu/~arnold/disasters/patriot.html.
Baker, Monya. 2016a. “1,500 Scientists Lift the Lid on Reproducibility.” Nature 533 (7604): 452–54. doi:10.1038/533452a.
———. 2016b. “Muddled Meanings Hamper Efforts to Fix Reproducibility Crisis.” Nature, June. doi:10.1038/nature.2016.20076.
Baker, Rachel, David Berry, Mark Brokering, Michael Dieter, Amanda French, and Barbara Rühling. 2014. On Book Sprints. Berlin: Booksprints.net. https://www.booksprints.net/en/blog/book-sprint-on-book-sprints/.
Barba, Lorena A. 2016. “The Hard Road to Reproducibility.” Science 354 (6308): 142–42. doi:10.1126/science.354.6308.142.
———. 2018. “Terminologies for Reproducible Research.” arXiv:1802.03311 [Cs], February. http://arxiv.org/abs/1802.03311.
Begley, C. Glenn, and Lee M. Ellis. 2012. “Drug Development : Raise Standards for Preclinical Cancer Research.” Nature 483 (March): 531–33. doi:10.1038/483531a.
Benureau, Fabien, and Nicolas Rougier. 2017. “Re-Run, Repeat, Reproduce, Reuse, Replicate: Transforming Code into Scientific Contributions.” arXiv:1708.08205 [Cs], August. http://arxiv.org/abs/1708.08205.
Bezjak, Sonja, Philipp Conzett, Pedro L. Fernandes, Edit Görögh, Kerstin Helbig, Bianca Kramer, Ignasi Labastida, et al. 2018. The Open Science Training Handbook. Foster Open Science. doi:10.5281/zenodo.2587951.
Broukhis, Leo, Simon Cooper, and Landon Curt Noll. 2019. “The International Obfuscated C Code Contest.” The International Obfuscated C Code Contest. http://ioccc.org/.
Brown, Neil C. C., and Greg Wilson. 2018. “Ten Quick Tips for Teaching Programming.” PLOS Computational Biology 14 (4): e1006023. doi:10.1371/journal.pcbi.1006023.
Bryan, Jenny. 2015. “How to Name Files.” Duke. https://speakerdeck.com/jennybc/how-to-name-files.
Bureau International des Poids et des Mesures. 2012. “Vocabulaire International de Métrologie – Concepts Fondamentaux et Généraux et Termes Associés.” JCGM 200:2012. Sèvres: Bureau International des Poids et des Mesures. https://www.bipm.org/utils/common/documents/jcgm/JCGM_200_2012.pdf.
———. 2019a. “Evaluation of Measurement Data - Supplement 2 to the ‘Guide to the Expression of Uncertainty in Measurement’ - Extension to Any Number of Output Quantities.” JCGM 102 : 2011. Sèvres: Bureau International des Poids et des Mesures. https://www.bipm.org/utils/common/documents/jcgm/JCGM_102_2011_E.pdf.
———. 2019b. “Évaluation Des Données de Mesure - Guide Pour L’expression de L’incertitude de Mesure.” JCGM 100:2008(F). Sèvres: Bureau International des Poids et des Mesures. https://www.bipm.org/utils/common/documents/jcgm/JCGM_100_2008_F.pdf.
Camerer, Colin F., Anna Dreber, Eskil Forsell, Teck-Hua Ho, Jürgen Huber, Magnus Johannesson, Michael Kirchler, et al. 2016. “Evaluating Replicability of Laboratory Experiments in Economics.” Science (New York, N.Y.) 351 (6280): 1433–6. doi:10.1126/science.aaf0918.
Center for Open Science. 2019. “Open Science Framework. A Scholarly Commons to Connect the Entire Research Cycle.” https://osf.io/.
Chacon, Scott, and Ben Straub. 2014. Pro Git Book. Everything You Need to Know About Git. 2nd ed. New York: Apress. https://git-scm.com/book/en/v2.
———. 2019. Pro Git. Tout Ce Que Vous Devez Savoir Sur Git. 2nd ed. New York: APress. https://git-scm.com/book/fr/v2.
Chambers, Chris. 2017. The Seven Deadly Sins of Psychology: A Manifesto for Reforming the Culture of Scientific Practice. Princeton: Princeton University Press.
Chirigati, Fernando, Rémi Rampin, Dennis Shasha, and Juliana Freire. 2016. “ReproZip: Computational Reproducibility with Ease.” In SIGMOD 2016 - Proceedings of the 2016 International Conference on Management of Data, 2085–8. Association for Computing Machinery. doi:10.1145/2882903.2899401.
Cirad. 2019. “Gérer Les Données de La Recherche - Gestion de L’information.” Coopérer En Information Scientifique et Technique. https://coop-ist.cirad.fr/gestion-de-l-information/gerer-les-donnees-de-la-recherche.
CNIL. 2019. “Textes Officiels.” CNIL. https://www.cnil.fr/fr/textes-officiels-europeens-protection-donnees.
CNRS. 2019. “Le Cahier de Laboratoire.” Informations Aux Laboratoires CNRS. http://www.cnrs.fr/infoslabos/cahier-laboratoire/.
Collberg, Christian S., and Todd A. Proebsting. 2016. “Repeatability in Computer Systems Research.” Communications of the ACM 59 (3): 62–69. doi:10.1145/2812803.
Collberg, Christian S., Todd A. Proebsting, and Alex M. Warren. 2015. “Repeatability and Benefaction in Computer Systems Research. A Study and a Modest Proposal.” University of Arizona: University of Arizona. http://reproducibility.cs.arizona.edu/v2/RepeatabilityTR.pdf.
Comité pour la science ouverte. 2019. “Ressources : Guides Juridiques.” Ouvrir La Science. https://www.ouvrirlascience.fr/category/ressources/?type=guides_juridiques.
Cottle, Peter. 2019. “Learn Git Branching.” https://pcottle.github.io/learnGitBranching/index.html?demo.
Creative Commons. 2019. “Choose a License.” Creative Commons. https://creativecommons.org/choose/.
Desquilbet, Loïc. 2019. “Guide Pratique de Validation Statistique de Méthodes de Mesure : Répétabilité, Reproductibilité, et Concordance.” Maison Alfort: Ecole Nationale Vétérinaire Maison Alfort. https://bit.ly/2ZKcQGL.
EuroSciPy. 2019. “EuroSciPy Home.” https://www.euroscipy.org/.
Ezhela, V. V., Yu V. Kuyanov, V. N. Larin, and A. S. Siver. 2004. “The Inconstancy of the Fundamental Physical Constants: Computational Status.” arXiv:physics/0409117, September. http://arxiv.org/abs/physics/0409117.
Feher, Miklos, and Christopher I. Williams. 2012a. “Numerical Errors and Chaotic Behavior in Docking Simulations.” Journal of Chemical Information and Modeling 52 (3): 724–38. doi:10.1021/ci200598m.
———. 2012b. “Numerical Errors in Minimization Based Binding Energy Calculations.” Journal of Chemical Information and Modeling 52 (12): 3200–3212. doi:10.1021/ci300298d.
Forstmeier, Wolfgang, Eric-Jan Wagenmakers, and H Parker Timothy. 2017. “Detecting and Avoiding Likely False-Positive Findings – a Practical Guide.” Biological Reviews 92 (4): 1941–68. doi:10.1111/brv.12315.
Foster Open Science. 2019. “Resources : Legal Issues.” Foster Open Science. https://www.fosteropenscience.eu/resources.
Gelman, Andrew. 2018. “The Failure of Null Hypothesis Significance Testing When Studying Incremental Changes, and What to Do About It.” Personality and Social Psychology Bulletin 44 (1): 16–23. doi:10.1177/0146167217729162.
Gelman, Andrew, and Hal Stern. 2006. “The Difference Between ‘Significant’ and ‘Not Significant’ Is Not Itself Statistically Significant.” The American Statistician 60 (4): 328–31. doi:10.1198/000313006X152649.
GitHub. 2019. “Choose an Open Source License.” Choose a License. https://choosealicense.com/.
GO FAIR. 2019. “FAIR Principles.” GO FAIR Initiative. https://www.go-fair.org/fair-principles/.
Goldberg, David. 1991. “What Every Computer Scientist Should Know About Floating-Point Arithmetic.” ACM Comput. Surv. 23 (1): 5–48. doi:10.1145/103162.103163.
Gronenschild, Ed H. B. M., Petra Habets, Heidi I. L. Jacobs, Ron Mengelers, Nico Rozendaal, Jim van Os, and Machteld Marcelis. 2012. “The Effects of FreeSurfer Version, Workstation Type, and Macintosh Operating System Version on Anatomical Volume and Cortical Thickness Measurements.” Edited by Satoru Hayasaka. PLoS ONE 7 (6): e38234. doi:10.1371/journal.pone.0038234.
Gruber, John. 2004. “Markdown.” Daring Fireball. https://daringfireball.net/projects/markdown/.
Hester, Jim, and Jenny Bryan. 2019. “Happy Git and GitHub for the useR.” https://happygitwithr.com/.
Hébrard, E., M. Dobrijevic, P. Pernot, N. Carrasco, A. Bergeat, K. M. Hickson, A. Canosa, S. D. Le Picard, and I. R. Sims. 2009. “How Measurements of Rate Coefficients at Low Temperature Increase the Predictivity of Photochemical Models of Titan’s Atmosphere.” The Journal of Physical Chemistry A 113 (42): 11227–37. doi:10.1021/jp905524e.
Huebner, Gesche, Moira Nicolson, Mike Fell, Harry Kennard, Simon Elam, Clare Hanmer, Charlotte Johnson, and David Shipworth. 2017. “Are We Heading Towards a Replicability Crisis in Energy Efficiency Research? A Toolkit for Improving the Quality, Transparency and Replicability of Energy Efficiency Impact Evaluations.” Eceee 2017 Summer Study on Energy Efficiency : Consumption, Efficiency and Limits, no. Monitoring and evaluation: building confidence and enhancing practices. https://www.eceee.org/library/conference_proceedings/eceee_Summer_Studies/2017/8-monitoring-and-evaluation-building-confidence-and-enhancing-practices/are-we-heading-towards-a-replicability-crisis-in-energy-efficiency-research-a-toolkit-for-improving-the-quality-transparency-and-replicability-of-energy-efficiency-impact-evaluations/.
Inra. 2019. “Datapartage - Gestion et Partage Des Données Scientifiques. Services, Outils et Bonnes Pratiques Recommandés Par L’Inra.” https://www6.inra.fr/datapartage.
Inria. 2017. “Guix, Un Logiciel Libre Pour La Reproductibilité Des Sciences En HPC.” Inria. https://www.inria.fr/centre/bordeaux/actualites/guix-un-logiciel-libre-pour-la-reproductibilite-des-sciences-en-hpc.
———. 2019. “Python : Des Fondamentaux à L’utilisation Du Langage.” FUN-MOOC. https://www.fun-mooc.fr/courses/inria/41001S03/session03/about.
Inria Learning Lab. 2018. “MOOC « Recherche Reproductible : Principes Méthodologiques Pour Une Science Transparente »– Session 2.” Inria Learning Lab. https://learninglab.inria.fr/mooc-recherche-reproductible-principes-methodologiques-pour-une-science-transparente/.
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Jet Propulsion Laboratory - California Institute of Technology. 2019. “Mars Climate Orbiter.” Jet Propulsion Laboratory - California Institute of Technology - NASA. https://www.jpl.nasa.gov/missions/mars-climate-orbiter/.
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Lakens, Daniel, Federico G. Adolfi, Casper Albers, Farid Anvari, Matthew A. J. Apps, Shlomo Engelson Argamon, Marcel A. L. M. van Assen, et al. 2017. “Justify Your Alpha: A Response to ‘Redefine Statistical Significance’.” PsyArXiv, September. doi:10.17605/OSF.IO/9S3Y6.
Lalanne, Christophe, and Bruno Falissard. 2019. “Le Langage R Markdown.” https://www.fun-mooc.fr/c4x/UPSUD/42001S02/asset/RMarkdown.html.
Legrand, Arnaud. 2016a. “Controling Your Environment.” Series of Webinars and Documents on Reproducible Research. https://github.com/alegrand/RR_webinars/blob/master/2_controling_your_environment/index.org.
———. 2016b. “Series of Webinars and Documents on Reproducible Research - Preserving Software: Ensuring Availability and Traceability.” Reproducible Research Webinars. https://github.com/alegrand/RR_webinars/blob/master/5_archiving_software_and_data/index.org.
———. 2016c. “Series of Webinars and Documents on Reproducible Research. Reproducible Science in Bioinformatics : Current Status, Solutions and Research Opportunities.” Reproducible Research Webinars. https://github.com/alegrand/RR_webinars.
———. 2018. “La Vitrine et L’envers Du Décor : Le Document Computationnel.” Mooc Recherche Reproductible : ressources publiques. GitLab. https://gitlab.inria.fr/learninglab/mooc-rr/mooc-rr-ressources/blob/master/module2/slides/C028AL_slides_module2-fr-gz.pdf.
———. 2019. “Bien Contrôler Son Environnement Logiciel.” Mooc Recherche Reproductible : Ressources Publiques. https://gitlab.inria.fr/learninglab/mooc-rr/mooc-rr-ressources/blob/master/module4/ressources/resources_environment_fr.org.
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Lowndes, Julia S. Stewart, Benjamin D. Best, Courtney Scarborough, Jamie C. Afflerbach, Melanie R. Frazier, Casey C. O’Hara, Ning Jiang, and Benjamin S. Halpern. 2017. “Our Path to Better Science in Less Time Using Open Data Science Tools.” Nature Ecology & Evolution 1 (6): 0160. doi:10.1038/s41559-017-0160.
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