Fluxible: an R package to calculate ecosystem gas fluxes in a reproducible and automated workflow.

Measurements of gas fluxes are widely used when assessing the impact of global-change drivers on key aspects of ecosystem dynamics, especially carbon. It shows whether an ecosystem is a source or a sink of atmospheric carbon, and how the storage dynamics could change in the future. Ecosystem gas fluxes are typically calculated from field-measured gas concentrations over time, using a linear or exponential model and manually selecting good quality data. This approach is highly time consuming and prone to potential bias that might be amplified in further steps, as well as having major reproducibility issues. The lack of a reproducible and bias-free approach creates challenges when combining global-change studies to make biome and landscape scale comparisons.

The Fluxible R package aims to fill this critical gap by providing a workflow that removes individual evaluation of each flux, reducing risk of bias, and making it reproducible. Users set specific data quality standards and selection parameters as function arguments that are applied to the entire dataset. The package runs the calculations automatically, without prompting the user to take decisions mid-way, and provides quality flags and graphs at the end of the process for a visual check. This makes it easier to use with large flux datasets and to integrate into a reproducible workflow. Using the Fluxible R package makes the workflow reproducible, increases compatibility across studies, and is more time efficient.