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

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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 publication
2016-08-31 13:31:19
Maintainer
Department for Biogeochemical Integration <REddyProc-help@bgc.mpg.de>
License
GPL (>= 2)
Version
0.8-2
URLs

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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