The role of metadata in reproducible computational research

J Leipzig, D Nüst, CT Hoyt, K Ram, J Greenberg - Patterns, 2021 - cell.com
Reproducible computational research (RCR) is the keystone of the scientific method for in
silico analyses, packaging the transformation of raw data to published results. In addition to …

Reproducibility, Replicability and Repeatability: A survey of reproducible research with a focus on high performance computing

B Antunes, DRC Hill - Computer Science Review, 2024 - Elsevier
Reproducibility is widely acknowledged as a fundamental principle in scientific research.
Currently, the scientific community grapples with numerous challenges associated with …

Do datasets have politics? Disciplinary values in computer vision dataset development

MK Scheuerman, A Hanna, E Denton - … of the ACM on Human-Computer …, 2021 - dl.acm.org
Data is a crucial component of machine learning. The field is reliant on data to train, validate,
and test models. With increased technical capabilities, machine learning research has …

[LIBRO][B] Reproducibility and replicability in science

National Academies of Sciences, Medicine, Policy… - 2019 - books.google.com
One of the pathways by which the scientific community confirms the validity of a new
scientific discovery is by repeating the research that produced it. When a scientific effort fails …

Functional R code is rare in species distribution and abundance papers

KF Kellner, JW Doser, JL Belant - Ecology, 2025 - Wiley Online Library
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 …

Trust but verify: How to leverage policies, workflows, and infrastructure to ensure computational reproducibility in publication

C Willis, V Stodden - Harvard Data Science Review, 2021 - par.nsf.gov
This article distills findings from a qualitative study of seven reproducibility initiatives to
enumerate nine key decision points for journals seeking to address concerns about the …

Learning from reproducing computational results: introducing three principles and the Reproduction Package

MS Krafczyk, A Shi, A Bhaskar… - … Transactions of the …, 2021 - royalsocietypublishing.org
We carry out efforts to reproduce computational results for seven published articles and
identify barriers to computational reproducibility. We then derive three principles to guide the …

For long-term sustainable software in bioinformatics

LP Coelho - PLOS Computational Biology, 2024 - journals.plos.org
Research software has become essential in science, including in the life sciences [1, 2].
Most of this software is designed and built by research groups funded by short-term research …

CSDMS: a community platform for numerical modeling of Earth surface processes

GE Tucker, EWH Hutton, MD Piper… - Geoscientific Model …, 2022 - gmd.copernicus.org
Computational modeling occupies a unique niche in Earth and environmental sciences.
Models serve not just as scientific technology and infrastructure but also as digital containers …

Scientific tests and continuous integration strategies to enhance reproducibility in the scientific software context

M Krafczyk, A Shi, A Bhaskar, D Marinov… - Proceedings of the 2nd …, 2019 - dl.acm.org
Continuous integration (CI) is a well-established technique in commercial and open-source
software projects, although not routinely used in scientific publishing. In the scientific …