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On code sharing and model documentation of published individual and agent-based models.
Environmental Modelling & Software ( IF 4.9 ) Pub Date : 2020-09-16 , DOI: 10.1016/j.envsoft.2020.104873
Marco A Janssen 1 , Calvin Pritchard 2 , Allen Lee 2
Affiliation  

Being able to replicate research results is the hallmark of science. Replication of research findings using computational models should, in principle, be possible. In this manuscript, we assess code sharing and model documentation practices of 7500 publications about individual-based and agent-based models. The code availability increased over the years, up to 18% in 2018.

Model documentation does not include all the elements that could improve the transparency of the models, such as mathematical equations, flow charts, and pseudocode. We find that articles with equations and flow charts being cited more among other model papers, probably because the model documentation is more transparent.

The practices of code sharing improve slowly over time, partly due to the emergence of more public repositories and archives, and code availability requirements by journals and sponsors. However, a significant change in norms and habits need to happen before computational modeling becomes a reproducible science.



中文翻译:

关于已发布的基于个人和代理的模型的代码共享和模型文档。

能够复制研究结果是科学的标志。原则上应该可以使用计算模型来复制研究结果。在此手稿中,我们评估了7500种有关基于个人和基于代理的模型的出版物的代码共享和模型文档实践。多年来,代码可用性有所提高,2018年达到18%。

模型文档并未包括可以提高模型透明度的所有元素,例如数学方程式,流程图和伪代码。我们发现带有方程式和流程图的文章在其他模型论文中被引用更多,这可能是因为模型文档更加透明。

代码共享的做法随着时间的推移逐渐改善,部分原因是出现了更多的公共存储库和档案,以及期刊和赞助商对代码可用性的要求。但是,在计算建模成为可复制的科学之前,准则和习惯必须发生重大变化。

更新日期:2020-09-22
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