Package: PEcAn.uncertainty 1.7.2.9000

David LeBauer

PEcAn.uncertainty: PEcAn Functions Used for Propagating and Partitioning Uncertainties in Ecological Forecasts and Reanalysis

The Predictive Ecosystem Carbon Analyzer (PEcAn) is a scientific workflow management tool that is designed to simplify the management of model parameterization, execution, and analysis. The goal of PECAn is to streamline the interaction between data and models, and to improve the efficacy of scientific investigation.

Authors:David LeBauer, Mike Dietze, Xiaohui Feng, Dan Wang, Carl Davidson, Rob Kooper, Shawn Serbin

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PEcAn.uncertainty.pdf |PEcAn.uncertainty.html✨
PEcAn.uncertainty/json (API)
NEWS

# Install PEcAn.uncertainty in R:
install.packages('PEcAn.uncertainty', repos = c('https://pecanproject.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/pecanproject/pecan/issues

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
  • c++– GNU Standard C++ Library v3
Datasets:

    On CRAN:

    bayesiancyberinfrastructuredata-assimilationdata-scienceecosystem-modelecosystem-scienceforecastingmeta-analysisnational-science-foundationpecanplants

    31 exports 199 stars 6.34 score 91 dependencies 5 dependents

    Last updated 6 days agofrom:d5c7bffdf2

    Exports:ensemble.filenameensemble.tsflux.uncertaintyget.changeget.coef.varget.elasticityget.ensemble.samplesget.parameter.samplesget.resultsget.sensitivityinput.ens.genplot_flux_uncertaintyplot_sensitivitiesplot_sensitivityplot_variance_decompositionread.ameriflux.L2read.ensemble.outputread.ensemble.tsread.sa.outputrun.ensemble.analysisrun.sensitivity.analysisrunModule.get.resultsrunModule.run.ensemble.analysisrunModule.run.sensitivity.analysissa.splinefunsd.varsensitivity.analysissensitivity.filenamespline.truncatewrite.ensemble.configswrite.sa.configs

    Dependencies:abindaskpassblobclicodacodetoolscolorspacecpp11curlDBIdbplyrdigestdplyrfansifarverforeachfsfurrrfuturegenericsgetoptggplot2globalsgluegridExtragtablehttrisobanditeratorsjsonlitelabelinglatticelifecyclelistenvlubridatemagrittrMASSMatrixMatrixModelsmcmcMCMCpackmgcvmimemunsellmvtnormncdf4nlmeopenssloptparseparallellyPEcAn.DBPEcAn.emulatorPEcAn.loggerPEcAn.MAPEcAn.priorsPEcAn.remotePEcAn.settingsPEcAn.utilspillarpkgconfigplyrpurrrquantregR.methodsS3R.ooR.utilsR6randtoolboxRColorBrewerRcpprjagsrlangrngWELLscalesSparseMstringistringrsurvivalsystibbletidyrtidyselecttimechangetriebeardunitsurltoolsutf8vctrsviridisLitewithrXML

    Readme and manuals

    Help Manual

    Help pageTopics
    Generate ensemble filenamesensemble.filename
    Plots an ensemble time-series from PEcAn for the selected target variableensemble.ts
    Calculate parameters for heteroskedastic flux uncertaintyflux.uncertainty
    Get delta between sequential flux datapointsget.change
    Get coefficient of varianceget.coef.var
    Get Elasticityget.elasticity
    Get Ensemble Samplesget.ensemble.samples
    Get g_i(phi_i)get.gi.phii
    Sample from priors or posteriorsget.parameter.samples
    Reads model output and runs sensitivity and ensemble analysesget.results
    Calculate Sensitivityget.sensitivity
    Function for generating samples based on sampling method, parent or etcinput.ens.gen
    Calculate excess kurtosis from a vectorkurtosis
    Plot fit for heteroskedastic flux uncertaintyplot_flux_uncertainty
    Plot Sensitivitiesplot_sensitivities
    Sensitivity plotplot_sensitivity
    Variance Decomposition Plotsplot_variance_decomposition
    Read Ameriflux L2 Dataread.ameriflux.L2
    Read ensemble outputread.ensemble.output
    Reads an ensemble time-series from PEcAn for the selected target variableread.ensemble.ts
    Read Sensitivity Analysis outputread.sa.output
    run ensemble.analysisrun.ensemble.analysis
    run sensitivity.analysisrun.sensitivity.analysis
    Apply get.results to each of a list of settingsrunModule.get.results
    Sensitivity spline functionsa.splinefun
    Standard deviation of sample variancesd.var
    Sensitivity Analysissensitivity.analysis
    Generate sensitivity analysis filenamessensitivity.filename
    Spline Ensemblespline.ensemble
    Truncate splinespline.truncate
    variance statisticsvariance.stats
    Write ensemble config fileswrite.ensemble.configs
    Write sensitivity analysis config fileswrite.sa.configs