TY - JOUR
T1 - fluxible: An R package to process ecosystem gas fluxes from closed-loop chambers in an automated and reproducible way
AU - Gaudard, Joseph
AU - Telford, Richard J.
AU - Chacon-Labella, Julia
AU - Dawson, Hilary Rose
AU - Enquist, Brian J.
AU - Töpper, Joachim P.
AU - Trepel, Jonas
AU - Vandvik, Vigdis
AU - Baumane, Marta
AU - Birkeli, Kristine
AU - Holle, Mukhlish Jamal Musa
AU - Hupp, Jason R.
AU - Santos-Andrade, Paul Efren
AU - Satriawan, Tin Widyani
AU - Halbritter, Aud H.
N1 - © 2025 The Author(s).
PY - 2025/9/25
Y1 - 2025/9/25
N2 - 1. Measuring ecosystem gas fluxes is crucial to understanding the dynamics of ecosystem water and energy cycling. A common method to measure ecosystem gas fluxes (CO2, CH4, N2O) and to compare experimental treatments is the use of closed-loop chambers. 2. However, the output data require extensive processing before analysis, making the workflow prone to bias and limiting comparability between studies. While there are various methods to process flux data, they lack reproducibility and automation. 3. The fluxible R package provides a reproducible way to process raw gas concentration data from closed-loop chambers into an analysis-ready dataset of ecosystem gas fluxes. The processing steps include (1) separating the measurements, (2) fitting a linear, quadratic, or exponential model, (3) assessing the quality of the fit, (4) plotting the fluxes for visual inspection and (5) calculating the fluxes. 4. In addition to reproducibility, fluxible focuses on homogeneity and automation in data processing, thus reducing the time investment for users while improving comparability across studies.
AB - 1. Measuring ecosystem gas fluxes is crucial to understanding the dynamics of ecosystem water and energy cycling. A common method to measure ecosystem gas fluxes (CO2, CH4, N2O) and to compare experimental treatments is the use of closed-loop chambers. 2. However, the output data require extensive processing before analysis, making the workflow prone to bias and limiting comparability between studies. While there are various methods to process flux data, they lack reproducibility and automation. 3. The fluxible R package provides a reproducible way to process raw gas concentration data from closed-loop chambers into an analysis-ready dataset of ecosystem gas fluxes. The processing steps include (1) separating the measurements, (2) fitting a linear, quadratic, or exponential model, (3) assessing the quality of the fit, (4) plotting the fluxes for visual inspection and (5) calculating the fluxes. 4. In addition to reproducibility, fluxible focuses on homogeneity and automation in data processing, thus reducing the time investment for users while improving comparability across studies.
KW - ecosystem gas fluxes
KW - flux chambers
KW - greenhouse gas emissions
KW - R package
KW - reproducible workflow
UR - https://www.scopus.com/pages/publications/105017843627
U2 - 10.1111/2041-210X.70161
DO - 10.1111/2041-210X.70161
M3 - Article
AN - SCOPUS:105017843627
SN - 2041-210X
VL - 16
JO - Methods in Ecology and Evolution
JF - Methods in Ecology and Evolution
IS - 11
ER -