Data processing and plotting utilities of (half-)hourly eddy-covariance measurements


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Documentation for package ‘REddyProc’ version 0.8-2

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REddyProc-package Data processing and plotting utilities of (half-)hourly eddy-covariance measurements
BerkeleyJulianDateToPOSIXct BerkeleyJulianDateToPOSIXct
DEGebExample Eddy covariance data from Gebesee crop site, Germany
Example_DETha98 Eddy covariance data from Tharandt, Germany
fAddNCFVar fAddNCFVar
fCalcAVPfromVMFandPress fCalcAVPfromVMFandPress
fCalcETfromLE fCalcETfromLE
fCalcExtRadiation fCalcExtRadiation
fCalcLengthOfGaps fCalcLengthOfGaps
fCalcPotRadiation fCalcPotRadiation
fCalcRHfromAVPandTair fCalcRHfromAVPandTair
fCalcSunPosition fCalcSunPosition
fCalcSVPfromTair fCalcSVPfromTair
fCalcVPDfromRHandTair fCalcVPDfromRHandTair
fCheckColNames fCheckColNames
fCheckColNum fCheckColNum
fCheckColPlausibility fCheckColPlausibility
fCheckHHTimeSeries fCheckHHTimeSeries
fCheckOutsideRange fCheckOutsideRange
fCheckValNum fCheckValNum
fCheckValString fCheckValString
fConvertCtoK fConvertCtoK
fConvertGapsToNA fConvertGapsToNA
fConvertGlobalToVisible fConvertGlobalToVisible
fConvertKtoC fConvertKtoC
fConvertNAsToGap fConvertNAsToGap
fConvertTimeToPosix Convert different time formats to POSIX
fConvertVisibleWm2toPhotons fConvertVisibleWm2toPhotons
fExpandToFullYear fExpandToFullYear
fFullYearTimeSteps fFullYearTimeSteps
fGetBeginOfEddyPeriod fGetBeginOfEddyPeriod
fGetEndOfEddyPeriod fGetEndOfEddyPeriod
fGetYearOfEddyPeriod fGetYearOfEddyPeriod
fInitFilesDir fInitFilesDir
fInterpolateGaps fInterpolateGaps
fLloydTaylor Temperature dependence of soil respiration
fLoadEuroFlux16 fLoadEuroFlux16
fLoadFluxNCInfo Get site information from BGI NetCDF files
fLoadFluxNCIntoDataframe Load NetCDF file
fLoadTXTIntoDataframe Load text file with one header and one unit row into data frame
fOptimSingleE0 Estimate temperature sensitivity E_0 using a Newton type optimization
fOptimSingleE0_Lev Estimate temperature sensitivity E_0 using Levenberg-Marquard optimization
fReadTimeBerkeley fReadTimeBerkeley
fReadTimeSeveralCols fReadTimeSeveralCols
fRegrE0fromShortTerm Estimation of the temperature sensitivity E_0
fSetFile fSetFile
fSetQF Check and set quality flag
fStripFileExtension fStripFileExtension
fWriteDataframeToFile fWriteDataframeToFile
getAmerifluxToBGC05VariableNameMapping getAmerifluxToBGC05VariableNameMapping
getBGC05ToAmerifluxVariableNameMapping getBGC05ToAmerifluxVariableNameMapping
POSIXctToBerkeleyJulianDate POSIXctToBerkeleyJulianDate
REddyProc Data processing and plotting utilities of (half-)hourly eddy-covariance measurements
renameVariablesInDataframe renameVariablesInDataframe
sEddyProc.example sEddyProc - Example code
sEddyProc.new sEddyProc$new - Initialization of sEddyProc
sEstUstarThreshold sEddyProc$sEstUstarThreshold - Estimating ustar threshold
sEstUstarThresholdDistribution sEstUstarThresholdDistribution
sExportData sEddyProc$sExportData - Export internal sDATA data frame
sExportResults sEddyProc$sExportData - Export internal sTEMP data frame with result columns
sFillInit sEddyProc$sFillInit - Initialize gap filling
sFillLUT sEddyProc$sFillLUT - Gap filling with Look-Up Table (LUT)
sFillMDC sEddyProc$sFillMDC - Gap filling with Mean Diurnal Course (MDC)
sGetData sEddyProc$sGetData - Get internal sDATA data frame
sMDSGapFill sEddyProc$sMDSGapFill - MDS gap filling algorithm
sMDSGapFillAfterUstar sEddyProc$sMDSGapFillAfterUstar - MDS gap filling algorithm after u* filtering
sMDSGapFillAfterUStarDistr GapFilling for several filters of estimated friction velocity Ustar thresholds.
sMRFluxPartition sEddyProc$sMRFluxPartition - Flux partitioning after Reichstein et al. (2005)
sPlotDailySums sEddyProc$sPlotDailySums - Image with daily sums of each year
sPlotDailySumsY sEddyProc$sPlotDailySumsY - Plot daily sum of specified year
sPlotDiurnalCycle sEddyProc$sPlotDiurnalCycle - Image with diurnal cycles of each month
sPlotFingerprint sEddyProc$sPlotFingerprint - Image with fingerprints of each year
sPlotFingerprintY sEddyProc$sPlotFingerprintY - Plot fingerprint of specified year
sPlotHHFluxes sEddyProc$sPlotHHFluxes - Image with half-hourly fluxes for each year
sPlotHHFluxesY sEddyProc$sPlotHHFluxesY - Plot half-hourly fluxes of specified year
sPlotNEEVersusUStarForSeason sEddyProc$sPlotNEEVersusUStarForSeason - Image with NEE versus UStar for each Temperature class of given season
sPrintFrames sEddyProc$sPrintFrames - Print internal sDATA and sTEMP data frame
sRegrE0fromShortTerm sEddyProc$sRegrE0fromShortTerm - Estimation of the temperature sensitivity E_0
sRegrRref sEddyProc$sRegrRref - Estimation of the time series of reference respiration Rref
usControlUstarEst usControlUstarEst
usControlUstarSubsetting usControlUstarSubsetting
usCreateSeasonFactorMonth usCreateSeasonFactorMonth
usCreateSeasonFactorMonthWithinYear usCreateSeasonFactorMonthWithinYear
usCreateSeasonFactorYday usCreateSeasonFactorYday
usCreateSeasonFactorYdayYear usCreateSeasonFactorYdayYear
usEstUstarThreshold sEddyProc$sEstUstarThreshold - Estimating ustar threshold
usEstUstarThresholdSingleFw1Binned usEstUstarThresholdSingleFw1Binned
usEstUstarThresholdSingleFw2Binned usEstUstarThresholdSingleFw2Binned
usGetAnnualSeasonUStarMappingFromDistributionResult usGetAnnualSeasonUStarMappingFromDistributionResult
usGetSeaonalSeasonUStarMappingFromDistributionResult usGetSeaonalSeasonUStarMappingFromDistributionResult
usGetValidUstarIndices usGetValidUstarIndices
usGetYearOfSeason usGetYearOfSeason