Package: fluxible 1.4.0

Joseph Gaudard

fluxible: Ecosystem Gas Fluxes Calculations for Closed Loop Chamber Setup

Toolbox to process raw data from closed loop flux chamber (or tent) setups into ecosystem gas fluxes usable for analysis. It goes from a data frame of gas concentration over time (which can contain several measurements) and a meta data file indicating which measurement was done when, to a data frame of ecosystem gas fluxes including quality diagnostics. Organized with one function per step, maximizing user flexibility and backwards compatibility. Different models to estimate the fluxes from the raw data are available: exponential as described in Zhao et al (2018) <doi:10.1016/j.agrformet.2018.08.022>, exponential as described in Hutchinson and Mosier (1981) <doi:10.2136/sssaj1981.03615995004500020017x>, quadratic, and linear. Other functions include quality assessment, plotting for visual check, calculation of fluxes based on the setup specific parameters (chamber size, plot area, ...), gross primary production and transpiration rate calculation, and light response curves.

Authors:Joseph Gaudard [aut, cre], Richard James Telford [aut]

fluxible_1.4.0.tar.gz
fluxible_1.4.0.zip(r-4.7-any)
fluxible_1.4.0.tar.gz(r-4.7-any)fluxible_1.4.0.tar.gz(r-4.6-any)
fluxible_1.4.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
fluxible/json (API)

# Install 'fluxible' in R:
install.packages('fluxible', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/plant-functional-trait-course/fluxible/issues

Pkgdown/docs site:https://plant-functional-trait-course.github.io

Datasets:

On CRAN:

Conda:

4.61 score 27 scripts 238 downloads 13 exports 56 dependencies

Last updated from:8d327d2ade. Checks:5 OK. Indexed: no.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK310
source / vignettesOK277
linux-release-x86_64OK294
windows-devel-x86_64OK273
wasm-releaseOK163

Exports:flux_calcflux_concflux_diffflux_drygasflux_fittingflux_flag_countflux_gppflux_lrcflux_matchflux_plotflux_qualityflux_unitsstupeflux

Dependencies:backportsbase64encbitbit64broomclicliprcpp11crayondplyrfarverforcatsgenericsggforceggplot2gluegtablehavenhmsisobandjsonlitelabelinglatticelifecyclelubridatemagrittrMASSpillarpkgconfigpolyclipprettyunitsprogresspurrrpurrrlyrR6RColorBrewerRcppreadrrlangS7scalesstringistringrsystemfontstibbletidyrtidyselecttimechangetweenrtzdbutf8vctrsviridisLitevroomwithrzoo

From raw gas concentration data to clean ecosystem gas fluxes.
Input | Attributing meta-data | Model fitting | Quality checks and visualisations | we show only a sample of the plots in this example | Gross Primary Production calculation | References
Rendered fromfluxible.Rmdusingknitr::rmarkdown

Last update: 2026-07-22
Started: 2025-02-13

Preparing the data for fluxible
Checklists for inputs | Input raw_conc | Input field_record | By-passing flux_match | Defining your dataset | Importing a single file | Importing multiple files | Units row below column names? | The one file per flux approach | The tricky one | References
Rendered fromdata-prep.Rmdusingknitr::rmarkdown

Last update: 2026-07-22
Started: 2025-02-13

Transforming gas concentration in volumetric units before modelling the fluxes
Rendered fromvol_conc.Rmdusingknitr::rmarkdown

Last update: 2026-07-22
Started: 2026-07-22

Using fluxible with the Li7500
Importing the files | Making a new field record | One side is reliable | Processing with fluxible | CO~2~ | H~2~O | Calculating Gross Primary Production and Transpiration | Further calculations | References
Rendered fromli7500.Rmdusingknitr::rmarkdown

Last update: 2025-08-22
Started: 2025-08-22

Working with two gases measured simultaneously
Rendered fromtwo-gases.Rmdusingknitr::rmarkdown

Last update: 2025-08-22
Started: 2025-02-13