Post Processing of (Half-)Hourly Eddy-Covariance Measurements
fSplitDateTime
fWriteFrench23
get day boundaries
Get the timestep in fractional hours
getAmerifluxToBGC05VariableNameMapping
partGLControl
fWriteDataframeToFile
BerkeleyJulianDateToPOSIXct
Estimate VPD from assuming dewpoint at daily minimum temperature
extract processing results with columns corresponding to Fluxnet15 rel...
fCalcAVPfromVMFandPress
fCalcETfromLE
fCalcExtRadiation
fCalcPotRadiation
fCalcRHfromAVPandTair
fCalcSVPfromTair
fCalcVPDfromRHandTair
fCheckHHTimeSeries
fConvertCtoK
fConvertGlobalToVisible
fConvertKtoC
fConvertTimeToPosix
fConvertVisibleWm2toPhotons
filter entire days
filter years eop
filterLongRuns
filterLongRunsInVector
fKeepColumnAttributes
Temperature dependence of soil respiration
Read basic variables from Ameriflux standard (as of 2022) files
fLoadEuroFlux16
Read a file in the format of Fluxnet 2015 release
Load text file with one header and one unit row into data frame
getBGC05ToAmerifluxVariableNameMapping
getExamplePath
getFilledExampleDETha98Data
getREddyProcExampleDir
getTZone
globalDummyVars
help DateTimes
help export
Class "LightResponseCurveFitter"
LightResponseCurveFitter
LightResponseCurveFitter computeCost
LightResponseCurveFitter computeLRCGradient
LightResponseCurveFitter fitLRC
LightResponseCurveFitter getOptimizedParameterPositions
LightResponseCurveFitter getParameterInitials
LightResponseCurveFitter getParameterNames
LightResponseCurveFitter getPriorLocation
LightResponseCurveFitter getPriorScale
LightResponseCurveFitter isParameterInBounds
LightResponseCurveFitter optimLRC
LightResponseCurveFitter optimLRCBounds
LightResponseCurveFitter optimLRCOnAdjustedPrior
LightResponseCurveFitter predictGPP
LightResponseCurveFitter predictLRC
Class "LogisticSigmoidLRCFitter"
LogisticSigmoidLRCFitter
LogisticSigmoidLRCFitter predictGPP
Class "NonrectangularLRCFitter"
NonrectangularLRCFitter
NonrectangularLRCFitter getParameterNames
NonrectangularLRCFitter predictGPP
partGLControlLasslopCompatible
partGLExtractStandardData
partitionNEEGL
Pipe operator
POSIXctToBerkeleyJulianDate
Extract basic variables from Ameriflux standard (as of 2022) data.fram...
extract REddyProc input columns from data.frame in Fluxnet15 format
Class "RectangularLRCFitter"
RectangularLRCFitter
RectangularLRCFitter predictGPP
Class "RectangularLRCFitterCVersion"
RectangularLRCFitterCVersion
Post Processing of (Half-)Hourly Eddy-Covariance Measurements
Get the default units for given variables
renameVariablesInDataframe
RHLightResponseCostC
Class "sEddyProc"
sEddyProc
sEddyProc initialize
sEddyProc sApplyUStarScen
sEddyProc sCalcPotRadiation
sEddyProc sEstimateUstarScenarios
sEddyProc$sEstUstarThreshold - Estimating ustar threshold
sEddyProc$sEstUstarThreshold - Estimating ustar threshold
sEddyProc sEstUstarThresholdDistribution
sEddyProc sExportData
sEddyProc sExportResults
sEddyProc$sFillInit - Initialize gap filling
sEddyProc sFillLUT
sEddyProc sFillMDC
Estimate VPD from daily minimum temperature
sEddyProc sGetData
sEddyProc sGetEstimatedUstarThresholdDistribution
sEddyProc sGetUstarScenarios
sEddyProc sGetUstarSuffixes
sEddyProc sGLFluxPartition
sEddyProc sGLFluxPartitionUStarScens
sEddyProc sMDSGapFill
sEddyProc sMDSGapFillAfterUstar
sEddyProc sMDSGapFillAfterUStarDistr
sEddyProc sMDSGapFillUStarScens
sEddyProc sMRFluxPartition
sEddyProc sMRFluxPartitionUStarScens
sEddyProc$sPlotDailySums - Image with daily sums of each year
sEddyProc sPlotDailySumsY
sEddyProc sPlotDiurnalCycle
sEddyProc sPlotDiurnalCycleM
sEddyProc sPlotFingerprint
sEddyProc sPlotFingerprintY
sEddyProc sPlotHHFluxes
sEddyProc sPlotHHFluxesY
sEddyProc sPlotNEEVersusUStarForSeason
sEddyProc sSetLocationInfo
sEddyProc sSetUstarScenarios
sEddyProc sSetUStarSeasons
sEddyProc sTKFluxPartition
sEddyProc sTKFluxPartitionUStarScens
Add columns reporting the uStar threshold for each scenario to sDATA
sEddyProc useAnnualUStarThresholds
sEddyProc useSeaonsalUStarThresholds
usControlUstarEst
usControlUstarSubsetting
usCreateSeasonFactorMonth
usCreateSeasonFactorMonthWithinYear
usCreateSeasonFactorYday
usCreateSeasonFactorYdayYear
usEstUstarThreshold - Estimating ustar threshold
usEstUstarThresholdSingleFw1Binned
usEstUstarThresholdSingleFw2Binned
usGetAnnualSeasonUStarMap
usGetSeasonalSeasonUStarMap
usGetYearOfSeason
Standard and extensible Eddy-Covariance data post-processing (Wutzler et al. (2018) <doi:10.5194/bg-15-5015-2018>) includes uStar-filtering, gap-filling, and flux-partitioning. The Eddy-Covariance (EC) micrometeorological technique quantifies continuous exchange fluxes of gases, energy, and momentum between an ecosystem and the atmosphere. It is important for understanding ecosystem dynamics and upscaling exchange fluxes. (Aubinet et al. (2012) <doi:10.1007/978-94-007-2351-1>). This package inputs pre-processed (half-)hourly data and supports further processing. First, a quality-check and filtering is performed based on the relationship between measured flux and friction velocity (uStar) to discard biased data (Papale et al. (2006) <doi:10.5194/bg-3-571-2006>). Second, gaps in the data are filled based on information from environmental conditions (Reichstein et al. (2005) <doi:10.1111/j.1365-2486.2005.001002.x>). Third, the net flux of carbon dioxide is partitioned into its gross fluxes in and out of the ecosystem by night-time based and day-time based approaches (Lasslop et al. (2010) <doi:10.1111/j.1365-2486.2009.02041.x>).
Useful links