RespChamberProc-package: Processing data from respiration chambers .

In bgctw/RespChamberProc: Processing Data from Respiration Chambers

Processing data from respiration chambers .

Description

Processing data from respiration chambers.

Details

Main method is calcClosedChamberFlux, to calculate flux and its uncertainty from a time series of measurements.

A first set of functions correct measured CO2 concentrations and fluxes for environmental and chamber properties.

• Dilution with water vapor: corrConcDilution

• Changing air density with pressure and temperature: corrFluxDensity

• Leakage of the chamber: corrFluxLeakage

A second set of functions estimates the flux and its uncertainty from the concentrations.

• Aggregating estimates: calcClosedChamberFlux

• Select the subset of data after lagTime: selectDataAfterLag

• Estimate the initial flux by polynomial regression: regressFluxExp

• Estimate uncertainty of regression due to leverage of starting and end points: sigmaBootLeverage

• Convert from mumol CO2/s to g C/day: convert_mumolPers_to_gPerday and back: convert_gPerday_to_mumolPers

Further misc functionality:

• Reading files generated by data-loggers into R: readDat and read81xVar

• Plotting the time series and the resulting best fit: plotResp

• Plotting measurement time versus resulting standard error of the flux estimate: plotDurationUncertainty

• Computing volume and surface area of common chamber geometries: calcChamberGeometryCuboid

Working with a time series of several measurement cycles (see vignette)

• identifying contiguous measurement cycles: subsetContiguous

• apply the fitting to all measurement cycles: calcClosedChamberFluxForChunks

• Plotting all time series and fits: plotCampaignConcSeries

Also have a look at the package vignettes.

Author(s)

Thomas Wutzler, Oscar Perez Priego

bgctw/RespChamberProc documentation built on Jan. 4, 2024, 6:12 a.m.