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

R eddy processing package with MDS gap filling algorithm, adopted after PV-Wave source code from Markus Reichstein.

Author(Department for Biogeochemical Integration at MPI-BGC, Jena, Germany)
Date of publication2016-08-31 13:31:19
MaintainerDepartment for Biogeochemical Integration <REddyProc-help@bgc.mpg.de>
LicenseGPL (>= 2)
Version0.8-2
http://www.bgc-jena.mpg.de/bgi/index.php/Services/REddyProcWeb, http://r-forge.r-project.org/projects/reddyproc/

View on R-Forge

Man pages

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...

fOptimSingleE0: Estimate temperature sensitivity E_0 using a Newton type...

fOptimSingleE0_Lev: Estimate temperature sensitivity E_0 using Levenberg-Marquard...

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-package: Data processing and plotting utilities of (half-)hourly...

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...

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...

sGetData: sEddyProc$sGetData - Get internal sDATA data frame

sMDSGapFill: sEddyProc$sMDSGapFill - MDS gap filling algorithm

sMDSGapFillAfterUstar: sEddyProc$sMDSGapFillAfterUstar - MDS gap filling algorithm...

sMDSGapFillAfterUStarDistr: GapFilling for several filters of estimated friction velocity...

sMRFluxPartition: sEddyProc$sMRFluxPartition - Flux partitioning after...

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...

sPlotFingerprint: sEddyProc$sPlotFingerprint - Image with fingerprints of each...

sPlotFingerprintY: sEddyProc$sPlotFingerprintY - Plot fingerprint of specified...

sPlotHHFluxes: sEddyProc$sPlotHHFluxes - Image with half-hourly fluxes for...

sPlotHHFluxesY: sEddyProc$sPlotHHFluxesY - Plot half-hourly fluxes of...

sPlotNEEVersusUStarForSeason: sEddyProc$sPlotNEEVersusUStarForSeason - Image with NEE...

sPrintFrames: sEddyProc$sPrintFrames - Print internal sDATA and sTEMP data...

sRegrE0fromShortTerm: sEddyProc$sRegrE0fromShortTerm - Estimation of the...

sRegrRref: sEddyProc$sRegrRref - Estimation of the time series of...

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

Files in this package

REddyProc/DESCRIPTION
REddyProc/NAMESPACE
REddyProc/R
REddyProc/R/DataFunctions.R REddyProc/R/Eddy.R REddyProc/R/EddyGapfilling.R REddyProc/R/EddyPartitioning.R REddyProc/R/EddyPlotting.R REddyProc/R/EddyUStarFilterChangePointDetection.R REddyProc/R/EddyUStarFilterDP.R REddyProc/R/Example.R REddyProc/R/FileHandling.R REddyProc/R/FileHandlingFormats.R REddyProc/R/GeoFunctions.R REddyProc/R/RcppExports.R REddyProc/R/cFunc.R REddyProc/R/variableNames.R REddyProc/R/zzzDebugCode.R
REddyProc/build
REddyProc/build/vignette.rds
REddyProc/data
REddyProc/data/DEGebExample.RData
REddyProc/data/Example_DETha98.RData
REddyProc/data/datalist
REddyProc/inst
REddyProc/inst/develop
REddyProc/inst/develop/DevelopmentNotes.docx
REddyProc/inst/develop/FlowDiagramGapfilling.pptx
REddyProc/inst/develop/MDSFlow.jpg
REddyProc/inst/develop/OutputColsExample.xlsx
REddyProc/inst/develop/compOldNewTool.R
REddyProc/inst/develop/genDEGebExample.R
REddyProc/inst/develop/genDocu
REddyProc/inst/develop/genDocu/DEGebExample.Rd REddyProc/inst/develop/genDocu/Example_DETha98.Rd REddyProc/inst/develop/genDocu/REddyProc-package.Rd
REddyProc/inst/develop/genOldToolData.R
REddyProc/inst/develop/genRpackage.R
REddyProc/inst/develop/setREnvir.R
REddyProc/inst/develop/templateInlinedocs.R
REddyProc/inst/develop/testEddyProc.R
REddyProc/inst/doc
REddyProc/inst/doc/DEGebExample.Rmd
REddyProc/inst/doc/DEGebExample.html
REddyProc/inst/examples
REddyProc/inst/examples/Example_DE-Tha.1996.1998.hourly.nc
REddyProc/inst/examples/Example_DETha98.txt
REddyProc/inst/examples/Example_DETha98_PVWave_DataSetafterFluxpart.txt
REddyProc/inst/examples/PVWave_TH98_new.txt
REddyProc/inst/scripts
REddyProc/inst/scripts/DataFunctions.R
REddyProc/inst/scripts/Eddy.R
REddyProc/inst/scripts/EddyGapfilling.R
REddyProc/inst/scripts/EddyPartitioning.R
REddyProc/inst/scripts/EddyPlotting.R
REddyProc/inst/scripts/EddyUStarFilterChangePointDetection.R
REddyProc/inst/scripts/EddyUStarFilterDP.R
REddyProc/inst/scripts/FileHandling.R
REddyProc/inst/scripts/GeoFunctions.R
REddyProc/inst/scripts/RcppExports.R
REddyProc/inst/scripts/cFunc.R
REddyProc/inst/scripts/zzzDebugCode.R
REddyProc/inst/tests
REddyProc/inst/tests/test_UStarFilter.R
REddyProc/inst/tests/test_binWithEqualValues.R
REddyProc/inst/tests/test_fCalcPotRadiation.R
REddyProc/inst/tests/test_fCheckValue.R
REddyProc/inst/tests/test_fConvertTimeToPosix.R
REddyProc/inst/tests/test_sEddyProc.R
REddyProc/inst/tests/test_sEddyProc_Partitioning.R
REddyProc/inst/tests2
REddyProc/inst/tests2/test_readNcdf.R
REddyProc/man
REddyProc/man/BerkeleyJulianDateToPOSIXct.Rd REddyProc/man/DEGebExample.Rd REddyProc/man/Example_DETha98.Rd REddyProc/man/POSIXctToBerkeleyJulianDate.Rd REddyProc/man/REddyProc-package.Rd REddyProc/man/fAddNCFVar.Rd REddyProc/man/fCalcAVPfromVMFandPress.Rd REddyProc/man/fCalcETfromLE.Rd REddyProc/man/fCalcExtRadiation.Rd REddyProc/man/fCalcLengthOfGaps.Rd REddyProc/man/fCalcPotRadiation.Rd REddyProc/man/fCalcRHfromAVPandTair.Rd REddyProc/man/fCalcSVPfromTair.Rd REddyProc/man/fCalcSunPosition.Rd REddyProc/man/fCalcVPDfromRHandTair.Rd REddyProc/man/fCheckColNames.Rd REddyProc/man/fCheckColNum.Rd REddyProc/man/fCheckColPlausibility.Rd REddyProc/man/fCheckHHTimeSeries.Rd REddyProc/man/fCheckOutsideRange.Rd REddyProc/man/fCheckValNum.Rd REddyProc/man/fCheckValString.Rd REddyProc/man/fConvertCtoK.Rd REddyProc/man/fConvertGapsToNA.Rd REddyProc/man/fConvertGlobalToVisible.Rd REddyProc/man/fConvertKtoC.Rd REddyProc/man/fConvertNAsToGap.Rd REddyProc/man/fConvertTimeToPosix.Rd REddyProc/man/fConvertVisibleWm2toPhotons.Rd REddyProc/man/fExpandToFullYear.Rd REddyProc/man/fFullYearTimeSteps.Rd REddyProc/man/fGetBeginOfEddyPeriod.Rd REddyProc/man/fGetEndOfEddyPeriod.Rd REddyProc/man/fGetYearOfEddyPeriod.Rd REddyProc/man/fInitFilesDir.Rd REddyProc/man/fInterpolateGaps.Rd REddyProc/man/fLloydTaylor.Rd REddyProc/man/fLoadEuroFlux16.Rd REddyProc/man/fLoadFluxNCInfo.Rd REddyProc/man/fLoadFluxNCIntoDataframe.Rd REddyProc/man/fLoadTXTIntoDataframe.Rd REddyProc/man/fOptimSingleE0.Rd REddyProc/man/fOptimSingleE0_Lev.Rd REddyProc/man/fReadTimeBerkeley.Rd REddyProc/man/fReadTimeSeveralCols.Rd REddyProc/man/fRegrE0fromShortTerm.Rd REddyProc/man/fSetFile.Rd REddyProc/man/fSetQF.Rd REddyProc/man/fStripFileExtension.Rd REddyProc/man/fWriteDataframeToFile.Rd REddyProc/man/getAmerifluxToBGC05VariableNameMapping.Rd REddyProc/man/getBGC05ToAmerifluxVariableNameMapping.Rd REddyProc/man/renameVariablesInDataframe.Rd REddyProc/man/sEddyProc.example.Rd REddyProc/man/sEddyProc.new.Rd REddyProc/man/sEstUstarThreshold.Rd REddyProc/man/sEstUstarThresholdDistribution.Rd REddyProc/man/sExportData.Rd REddyProc/man/sExportResults.Rd REddyProc/man/sFillInit.Rd REddyProc/man/sFillLUT.Rd REddyProc/man/sFillMDC.Rd REddyProc/man/sGetData.Rd REddyProc/man/sMDSGapFill.Rd REddyProc/man/sMDSGapFillAfterUStarDistr.Rd REddyProc/man/sMDSGapFillAfterUstar.Rd REddyProc/man/sMRFluxPartition.Rd REddyProc/man/sPlotDailySums.Rd REddyProc/man/sPlotDailySumsY.Rd REddyProc/man/sPlotDiurnalCycle.Rd REddyProc/man/sPlotFingerprint.Rd REddyProc/man/sPlotFingerprintY.Rd REddyProc/man/sPlotHHFluxes.Rd REddyProc/man/sPlotHHFluxesY.Rd REddyProc/man/sPlotNEEVersusUStarForSeason.Rd REddyProc/man/sPrintFrames.Rd REddyProc/man/sRegrE0fromShortTerm.Rd REddyProc/man/sRegrRref.Rd REddyProc/man/usControlUstarEst.Rd REddyProc/man/usControlUstarSubsetting.Rd REddyProc/man/usCreateSeasonFactorMonth.Rd REddyProc/man/usCreateSeasonFactorMonthWithinYear.Rd REddyProc/man/usCreateSeasonFactorYday.Rd REddyProc/man/usCreateSeasonFactorYdayYear.Rd REddyProc/man/usEstUstarThreshold.Rd REddyProc/man/usEstUstarThresholdSingleFw1Binned.Rd REddyProc/man/usEstUstarThresholdSingleFw2Binned.Rd REddyProc/man/usGetAnnualSeasonUStarMappingFromDistributionResult.Rd REddyProc/man/usGetSeaonalSeasonUStarMappingFromDistributionResult.Rd REddyProc/man/usGetValidUstarIndices.Rd REddyProc/man/usGetYearOfSeason.Rd
REddyProc/src
REddyProc/src/RcppExports.cpp
REddyProc/src/whichValueGreaterEqualC.cpp
REddyProc/tests
REddyProc/tests/doRUnit.R
REddyProc/vignettes
REddyProc/vignettes/DEGebExample.Rmd

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