Files in wStockhausen/rTCSAM2013

Functions to run and plot output from TCSAM2013 models.

R/calcABC.R R/calcCIs.R R/compareModelResults.FisheryMeanZCs.R R/compareModelResults.FisheryPRs.R R/compareModelResults.FisheryQuantities.R R/compareModelResults.FisheryRates.R R/compareModelResults.FisheryRetFcns.R R/compareModelResults.FisherySelFcns.R R/compareModelResults.FisheryTCFMaleSelFcns.R R/compareModelResults.FisheryZCs.R R/compareModelResults.GrowthMatrices.R R/compareModelResults.MeanGrowth.R R/compareModelResults.NatMort.R R/compareModelResults.ObjFunComponents.R R/compareModelResults.Params.R R/compareModelResults.PopProcesses.R R/compareModelResults.PopQuantities.R R/compareModelResults.PrM2M.R R/compareModelResults.SurveyMeanZCs.R R/compareModelResults.SurveyPRs.R R/compareModelResults.SurveyQuantities.R R/compareModelResults.SurveySelFcns.R R/compareModelResults.SurveyZCs.R R/convertToListOfResults.R R/exportModelComparisons.TimeSeries.R R/extractJitterInfo.R R/getMDFR.Fisheries.CatchAbundance.R R/getMDFR.Fisheries.CatchBiomass.R R/getMDFR.FisheryQuantities.R R/getMDFR.ObjFunComponents.R R/getMDFR.ParamsPlusStdDevs.R R/getMDFR.Pop.Abundance.R R/getMDFR.Pop.Biomass.R R/getMDFR.Pop.GrowthMatrices.R R/getMDFR.Pop.MatureBiomass.R R/getMDFR.Pop.MeanGrowth.R R/getMDFR.Pop.NaturalMortality.R R/getMDFR.Pop.PrM2M.R R/getMDFR.Pop.Processes.R R/getMDFR.Pop.Quantities.R R/getMDFR.Pop.RecSizeDistribution.R R/getMDFR.Pop.Recruitment.R R/getMDFR.SurveyQuantities.R R/getMDFR.Surveys.Abundance.R R/getMDFR.Surveys.Biomass.R R/getMDFR.XZ.R R/getOFC.R R/getPar.R R/getPrs.R R/getRep.R R/getResLst.R R/getRunCommands.R R/getStd.R R/getSubPaths.R R/getTimeInfo.R R/getWTS.R R/plot2.ModelComparisonsGG.TimeSeries.R R/plotABC.R R/plotBubbles.R R/plotData.Fishery.Discarded.NatZ.R R/plotData.Fishery.Retained.NatZ.R R/plotData.R R/plotData.Survey.NatZ.R R/plotMeanSizeComps.R R/plotModelComparisons.TimeSeries.R R/plotModelComparisonsGG.TimeSeries.R R/plotModelComparisonsGG.ZScores.R R/plotMulti.GG.R R/plotNatMort.R R/plotQuadPlot.R R/plotSizeCompsComparisons.R R/plotTCSAM2013.R R/plotTCSAM2013I.GG.R R/plotTCSAM2013I.R R/plotTCSAM_WTS.R R/plotTCSAM_WTS.ZScores.R R/plotZScores.R R/removeImmOS.R R/renderReports.R R/renderRetroReports.R R/runJitter.R R/runProfiles.R R/runSequence.R R/runTCSAM2013.R README.md inst/Rmd/createReport.Figures.Rmd inst/Rmd/createReport.Tables.Rmd inst/Rmd/createRetroReport.Figures.Rmd inst/Rmd/createRetroReport.Tables.Rmd man/calcABC.Rd man/calcCIs.Rd man/compareModelResults.FisheryMeanZCs.Rd man/compareModelResults.FisheryPRs.Rd man/compareModelResults.FisheryQuantities.Rd man/compareModelResults.FisheryRates.Rd man/compareModelResults.FisheryRetFcns.Rd man/compareModelResults.FisherySelFcns.Rd man/compareModelResults.FisheryTCFMaleSelFcns.Rd man/compareModelResults.FisheryZCs.Rd man/compareModelResults.GrowthMatrices.Rd man/compareModelResults.MeanGrowth.Rd man/compareModelResults.NatMort.Rd man/compareModelResults.ObjFunComponents.Rd man/compareModelResults.Params.Rd man/compareModelResults.PopProcesses.Rd man/compareModelResults.PopQuantities.Rd man/compareModelResults.PrM2M.Rd man/compareModelResults.SurveyMeanZCs.Rd man/compareModelResults.SurveyPRs.Rd man/compareModelResults.SurveyQuantities.Rd man/compareModelResults.SurveySelFcns.Rd man/compareModelResults.SurveyZCs.Rd man/convertToListOfResults.Rd man/exportModelComparisons.TimeSeries.Rd man/extractJitterInfo.Rd man/getMDFR.Fisheries.CatchAbundance.Rd man/getMDFR.Fisheries.CatchBiomass.Rd man/getMDFR.FisheryQuantities.Rd man/getMDFR.ObjFunComponents.Rd man/getMDFR.ParamsPlusStdDevs.Rd man/getMDFR.Pop.Abundance.Rd man/getMDFR.Pop.Biomass.Rd man/getMDFR.Pop.GrowthMatrices.Rd man/getMDFR.Pop.MatureBiomass.Rd man/getMDFR.Pop.MeanGrowth.Rd man/getMDFR.Pop.NaturalMortality.Rd man/getMDFR.Pop.PrM2M.Rd man/getMDFR.Pop.Processes.Rd man/getMDFR.Pop.Quantities.Rd man/getMDFR.Pop.RecSizeDistribution.Rd man/getMDFR.Pop.Recruitment.Rd man/getMDFR.SurveyQuantities.Rd man/getMDFR.Surveys.Abundance.Rd man/getMDFR.Surveys.Biomass.Rd man/getMDFR.XZ.Rd man/getOFC.Rd man/getPar.Rd man/getPrs.Rd man/getRep.Rd man/getResLst.Rd man/getRunCommands.Rd man/getStd.Rd man/getSubPaths.Rd man/getTimeInfo.Rd man/getWTS.Rd man/plot2.ModelComparisonsGG.TimeSeries.Rd man/plotABC.Rd man/plotBubbles.Rd man/plotData.Fishery.Discarded.NatZ.Rd man/plotData.Fishery.Retained.NatZ.Rd man/plotData.Rd man/plotData.Survey.NatZ.Rd man/plotMeanSizeComps.Rd man/plotModelComparisons.TimeSeries.Rd man/plotModelComparisonsGG.TimeSeries.Rd man/plotModelComparisonsGG.ZScores.Rd man/plotMulti.GG.Rd man/plotNatMort.Rd man/plotQuadPlot.Rd man/plotSizeCompsComparisons.Rd man/plotTCSAM2013.Rd man/plotTCSAM2013I.GG.Rd man/plotTCSAM2013I.Rd man/plotTCSAM_WTS.Rd man/plotTCSAM_WTS.ZScores.Rd man/plotZScores.Rd man/removeImmOS.Rd man/renderReports.Rd man/renderRetroReports.Rd man/runJitter.Rd man/runProfiles.Rd man/runSequence.Rd man/runTCSAM2013.Rd