14 papers · ranked by Valyu relevance
Antica Culina, Ilona van den Berg, Simon Evans, Alfredo Sánchez-Tójar
'Alfredo Sánchez-Tójar'] Access to analytical code is essential for transparent and reproducible research. We review the state of code availability in ecology using a random sample of 346 nonmolecular articles published between 2015 and 2019 under mandatory or encouraged code-sharing policies. Our results call for…
Nitesh Kumar Sharma, Ram Ayyala, Dhrithi Deshpande, Yesha Patel + 13 more
'Viorel Munteanu' 'Dumitru Ciorba' 'Viorel Bostan' 'Andrada Fiscutean' 'Mohammad Vahed' 'Aditya Sarkar' 'Ruiwei Guo' 'Andrew Moore' 'Nicholas Darci-Maher' 'Nicole Nogoy' 'Malak Abedalthagafi' 'Serghei Mangul' 'Harry Hochheiser'] Data-driven computational analysis is becoming increasingly important in biomedical…
Michael John Grayling, Graham Mark Wheeler
design Authors: Michael John Grayling, Graham Mark Wheeler Our search yielded 4123 articles across the 31 considered journals ([Supplementary Table 1]()). Of these, 3875 were excluded on the following grounds: Non-adaptive design methodology (3817); Not a complete peer-reviewed article (40); Not directly applied to…
Tom Pollard, Thomas Sounack, Catherine A. Gao, Leo Anthony Celi + 5 more
Introduction The Transparent Reporting of a multivariable prediction model of Individual Prognosis Or Diagnosis (TRIPOD) statement was published to improve the reporting and critical appraisal of prediction model studies for diagnosis and prognosis. This paper describes the processes and methods that will be used to…
Taishi Kayano, Yura Ko, Kanako Otani, Tetsuro Kobayashi + 2 more
Correction to: Scientifc Reports 10.1038/s41598-023-44942-6, published online 18 October 2023 The original version of this Article contained errors in the Data availability section. The raw epidemiological data used in the study is not publicly available but can be accessed through an application to the National…
Daniel Nüst, Stephen J. Eglen
The traditional scientific paper falls short of effectively communicating computational research. To help improve this situation, we propose a system by which the computational workflows underlying research articles are checked. The CODECHECK system uses open infrastructure and tools and can be integrated into review…
Lauren Cadwallader, Iain Hrynaszkiewicz, Björn Brembs
This research aimed to understand the needs and habits of researchers in relation to code sharing and reuse; gather feedback on prototype code notebooks created by NeuroLibre; and help determine strategies that publishers could use to increase code sharing. We surveyed 188 researchers in computational biology.…
Kenneth F. Kellner, Jeffrey W. Doser, Jerrold L. Belant
Analytic reproducibility is important for scientific credibility in ecology, but the extent to which scientific literature meets this criterion is not well understood. We surveyed 497 papers published in 2018-2022 in 9 ecology-related journals. We focused on papers that used hierarchical models to estimate species…
Evan Russell, Andrew K. Hall, Conor McKaigney, Craig Goldie + 2 more
'Ingrid Harle' 'Marco L.A. Sivilotti'] Introduction Some patients with end-stage disease who may neither want nor benefit from aggressive resuscitation receive such treatment if they cannot communicate in an emergency. Timely access to patients’ current resuscitation wishes, or “code status,” should be a key metric of…
Brian Maitner, Paul Efren Santos Andrade, Luna Lei, Jamie Kass + 11 more
'Hannah L. Owens' 'George C. G. Barbosa' 'Brad Boyle' 'Matiss Castorena' 'Brian J. Enquist' 'Xiao Feng' 'Daniel S. Park' 'Andrea Paz' 'Gonzalo Pinilla‐Buitrago' 'Cory Merow' 'Adam Wilson'] Title: Abstract Biologists increasingly rely on computer code to collect and analyze their data, reinforcing the importance of…
Daniel G. Hamilton, Matthew J. Page, Sue Finch, Sarah Everitt + 1 more
'Fiona Fidler'] Background Various stakeholders are calling for increased availability of data and code from cancer research. However, it is unclear how commonly these products are shared, and what factors are associated with sharing. Our objective was to evaluate how frequently oncology researchers make data and code…
Daniel Krähmer, Laura Schächtele, Andreas Schneck, Simon Porcher
Transparency and peer control are cornerstones of good scientific practice and entail the replication and reproduction of findings. The feasibility of replications, however, hinges on the premise that original researchers make their data and research code publicly available. This applies in particular to large-N…
Rachel Pechey, Gareth J. Hollands, Patrice Carter, Theresa M. Marteau
'Theresa M. Marteau'] Altering the availability of products (e.g. food, alcohol or tobacco products) is one potential intervention to change behaviours to help reduce preventable premature deaths worldwide. However, research on these interventions lacks consistent conceptualisation, hindering clear reporting and…
Luca Ardito, Luca Barbato, Riccardo Coppola, Michele Valsesia + 1 more
'Antonia Lopes'] Rust is an innovative programming language initially implemented by Mozilla, developed to ensure high performance, reliability, and productivity. The final purpose of this study consists of applying a set of common static software metrics to programs written in Rust to assess the verbosity…