Code is at the heart of computational social and behavioral science. To increase code reliability and reproducibility, Nature Human Behavior is implementing formal peer review of the code behind computational models whenever they are essential to published research. They ask authors to prepare and store their code with readability, transparency, and future replicability in mind.
The American Physiological Society (APS) announced it will provide authors with improved guidance for article submission. Research articles published in APS journals are expected to report experimental methods in sufficient detail to allow for transparency of data and replication by others. The ability of others to reproduce results validates original findings and can advance research. [...]
SysMod at ISMB/ECCB 2021 features keynote talks by Ruth E. Baker: “Identifiability and inference for models in mathematical biology,” Ines Thiele: “Whole-body metabolic modeling provides novel insight into host-microbiome crosstalk,” and Boris N. Kholodenko: “Structure-based dynamic modeling reveals ways to overcome kinase inhibitor resistance and oncogenic RAS signaling and oncogenic RAS signaling.” Dedicated sessions on the [...]
Seeking participants for the 2021 SPARC FAIR Codeathon, due June 25th! Help make SPARC data, tools, and resources more Findable, Accessible, Interoperable, and Reusable in this in-the-cloud codeathon that runs from July 12-26, 2021. In this codeathon, exciting projects which use SPARC data and/or SPARC tools and resources in novel ways, particularly in enhancing, demonstrating, or measuring the findability, accessibility, [...]
The Center for Reproducible Biomedical Modeling has a new publication, Practical Resources for Enhancing the Reproducibility of Mechanistic Modeling in Systems Biology. It is now available on ResearchGate. Authors: Michael Blinov, John Gennari, Jonathan Karr, Ion Moraru, David Nickerson, Herbert Sauro Highlights • Reproducibility is critical to the advancement of computational modeling. • The current [...]
As the result of a mandate from Congress, the National Academies will explore the issues of reproducibility and replication in scientific and engineering research. The committee will explore what is known and identify areas that may need more information to ascertain the extent of reproducibility and replication, review current activities to improve reproducibility and replication [...]
Lorena A. Barba's article Terminologies for Reproducible Research discusses how reproducible research---by its many names---has come to be regarded as a key concern across disciplines and stakeholder groups. Funding agencies and journals, professional societies and even mass media are paying attention, often focusing on the "crisis" of reproducibility. https://arxiv.org/abs/1802.03311
Follow the replication crisis (aka replicability crisis and reproducibility crisis) with ongoing updates about how it impacts many facets of life, economics, politics, and public awareness. https://en.wikipedia.org/wiki/Replication_crisis
The Nature article, "1,500 scientists lift the lid on reproducibility" by Monya Baker, sheds light on the ‘crisis’ rocking research. https://www.nature.com/news/1-500-scientists-lift-the-lid-on-reproducibility-1.19970
An excerpt from the recently published paper "Reproducibility in Systems Biology Modelling". https://www.biorxiv.org/content/10.1101/2020.08.07.239855v1 "The reproducibility crisis has emerged as an important concern across many fields of science including life science, since many published results failed to reproduce. Systems biology modeling, which involves mathematical representation of biological processes to study complex system behaviour, was expected to [...]
