├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ ├── R-CMD-check.yaml │ └── pkgdown.yaml ├── .gitignore ├── CITATION.cff ├── CLAUDE.md ├── DESCRIPTION ├── GeoChronR-package.Rproj ├── LICENSE ├── LICENSE.md ├── NAMESPACE ├── NEWS.md ├── R ├── .Rapp.history ├── .Rproj.user │ └── B0E66773 │ │ ├── pcs │ │ ├── files-pane.pper │ │ ├── source-pane.pper │ │ ├── windowlayoutstate.pper │ │ └── workbench-pane.pper │ │ ├── saved_source_markers │ │ └── sdb │ │ ├── per │ │ └── t │ │ │ └── AFD9DB7C │ │ └── prop │ │ ├── 7A5449FE │ │ └── INDEX ├── BAM.lipd.R ├── PCA.geoChronR.R ├── bacon.lipd.R ├── chronBuilding.R ├── correlation.regression.functions.R ├── createModel.R ├── ensembleComposite.R ├── fdr.R ├── helper.R ├── lipd.manipulation.R ├── mapping.functions.R ├── oxcal.R ├── plotting.geoChronR.R ├── power.spectra.ens.R ├── run.bchron.LiPD.R └── zzz.R ├── README.md ├── _pkgdown.yml ├── _toc.yml ├── chapter_meta.yml ├── fdr_testing.R ├── inst └── CITATION ├── logo.png ├── logo.svg ├── logoinkscape.svg ├── logoinkscape.svg.2024_03_05_15_13_39.0.svg ├── man ├── AD2BP_trans.Rd ├── BP2AD_trans.Rd ├── alignTimeseriesBin.Rd ├── ar1.Rd ├── ar1Surrogates.Rd ├── askUser.Rd ├── axisLabel.Rd ├── bamCorrect.Rd ├── baseMap.Rd ├── bin.Rd ├── bin2d.Rd ├── binEns.Rd ├── binTs.Rd ├── computeSpectraEns.Rd ├── concatEnsembleTimeseries.Rd ├── convertAD2BP.Rd ├── convertBP2AD.Rd ├── corEns.Rd ├── corMatrix.Rd ├── createChronMeasInputDf.Rd ├── createConcatenatedEnsembleMeasurementTable.Rd ├── createModel.Rd ├── createMultiModelEnsemble.Rd ├── createOxcalModel.Rd ├── createSedRateEnsemble.Rd ├── createSummaryTableFromEnsembleTable.Rd ├── createSyntheticTimeseries.Rd ├── createTSid.Rd ├── effectiveN.Rd ├── estimateUncertaintyFromRange.Rd ├── fdr.Rd ├── fdr.master.Rd ├── fdrBasic.Rd ├── gaussianize.Rd ├── generateEnsembleFromUncertainty.Rd ├── geoChronRPlotTheme.Rd ├── getBaconDir.Rd ├── getLastVarString.Rd ├── getLegend.Rd ├── getModelParametersFromOxcalText.Rd ├── getOs.Rd ├── getPlotRanges.Rd ├── getVariableIndex.Rd ├── heuristicUnits.Rd ├── kde2d.Rd ├── loadBaconOutput.Rd ├── loadOxcalOutput.Rd ├── loadRemote.Rd ├── mapAgeEnsembleToPaleoData.Rd ├── mapLipd.Rd ├── mapTs.Rd ├── meltDistributionTable.Rd ├── modeSelektor.Rd ├── oxCalDateExpression.Rd ├── pcaEns.Rd ├── periodAnnotate.Rd ├── plotChron.Rd ├── plotChronEns.Rd ├── plotChronEnsDiff.Rd ├── plotCorEns.Rd ├── plotHistEns.Rd ├── plotLine.Rd ├── plotModelDistributions.Rd ├── plotPcaEns.Rd ├── plotPvalsEnsFdr.Rd ├── plotRegressEns.Rd ├── plotScatterEns.Rd ├── plotScreeEns.Rd ├── plotSpectraEns.Rd ├── plotSpectrum.Rd ├── plotSummary.Rd ├── plotSummaryTs.Rd ├── plotTimeAvailabilityTs.Rd ├── plotTimeseriesEnsLines.Rd ├── plotTimeseriesEnsRibbons.Rd ├── plotTimeseriesStack.Rd ├── plotTrendLinesEns.Rd ├── propAlt.Rd ├── pullInstance.Rd ├── pullTsVariable.Rd ├── pvalMonteCarlo.Rd ├── pvalPearsonSerialCorrected.Rd ├── quantile2d.Rd ├── regress.Rd ├── regressEns.Rd ├── reverselog10_trans.Rd ├── runBacon.Rd ├── runBam.Rd ├── runBchron.Rd ├── runOxcal.Rd ├── runOxcalModel.Rd ├── sampleBaconAges.Rd ├── selectData.Rd ├── setBaconDir.Rd ├── simulateAutoCorrelatedUncertainty.Rd ├── simulateBam.Rd ├── storey.Rd ├── stringifyVariables.Rd ├── surrogateDataFun.Rd └── writeBacon.Rd ├── tests ├── testthat.R └── testthat │ └── testbin.R ├── thumbnails ├── PCA.png ├── add_ensemble.png ├── correlation.png ├── filter_map.png ├── introduction.png ├── oxcal.png ├── plot_stack.png ├── regression.png ├── spectral_analysis.png └── tidy_filter.png └── vignettes ├── AddEnsemble.Rmd ├── Introduction.Rmd ├── PCA.Rmd ├── PlotTimeseriesStack.Rmd ├── TsFilteringAndMapping.Rmd ├── correlation.Rmd ├── oxCal.Rmd ├── regression.Rmd ├── spectral_analysis.Rmd └── tidyIso2k.Rmd /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/nickmckay/GeoChronR/HEAD/.Rbuildignore -------------------------------------------------------------------------------- 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