Files in ices-tools-dev/icesRDBES
Functions for the ICES Regional Database and Estimation System (RDBES)

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/test-coverage.yaml

.gitignore

.pre-commit-config.yaml

DESCRIPTION

FishNCo/CoveragePlot_examples.Rmd

FishNCo/CoveragePlot_examples.html

FishNCo/Maps/SpeciesCodes.xlsx

FishNCo/Maps/shapefiles/GSHHG/GSHHG - A Global Self-consistent, Hierarchical, High-resolution Geography Database.pdf FishNCo/Maps/shapefiles/GSHHG/Wessel+Smith_1996_JGR.pdf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/COPYING.LESSERv3

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/GSHHS_shp/README.TXT

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/GSHHS_shp/l/GSHHS_l_L1.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/GSHHS_shp/l/GSHHS_l_L1.prj

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FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/GSHHS_shp/l/GSHHS_l_L6.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/LICENSE.TXT

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/README.TXT

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/SHAPEFILES.TXT

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/README.TXT

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L1.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L1.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L1.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L1.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L2.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L2.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L2.shp

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FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L3.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L3.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L3.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_border_l_L3.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L01.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L01.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L01.shp

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FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L03.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L03.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L03.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L03.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L04.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L04.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L04.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L04.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L05.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L05.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L05.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L05.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L06.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L06.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L06.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L06.shx

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FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L08.shp

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FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L09.dbf

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FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L10.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L10.shx

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L11.dbf

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L11.prj

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L11.shp

FishNCo/Maps/shapefiles/GSHHG/gshhg-shp-2.3.7/WDBII_shp/l/WDBII_river_l_L11.shx

FishNCo/Maps/shapefiles/ICESrect.cpg

FishNCo/Maps/shapefiles/ICESrect.dbf

FishNCo/Maps/shapefiles/ICESrect.prj

FishNCo/Maps/shapefiles/ICESrect.sbn

FishNCo/Maps/shapefiles/ICESrect.sbx

FishNCo/Maps/shapefiles/ICESrect.shp

FishNCo/Maps/shapefiles/ICESrect.shp.xml

FishNCo/Maps/shapefiles/ICESrect.shx

FishNCo/README.md FishNCo/VariancePlot_examples.Rmd

FishNCo/VariancePlot_examples.html

FishNCo/coverageEffort.R FishNCo/coverageLandings.R

FishNCo/testData/CoveragePlot_regional_example.html

FishNCo/testData/StrataEst.rds

FishNCo/testData/VariancePlot_regional_example.html

FishNCo/testData/createVarianceExampleTestData.R

LICENSE

NAMESPACE

NEWS.md R/addCLtoLowerCS.R R/applyGenerateProbs.R R/combineRDBESDataObjects.R R/createDBEPrepObj.R R/createRDBESDataObject.R R/createRDBESEstObject.R R/createTableOfRDBESIds.r R/data.R R/doBVestimCACNUM.R R/doDBEestimantionObjUpp.R R/doDBestimation.R R/doEstimationForAllStrata.R R/doEstimationRatio.R R/estim.R R/estimMC.R R/exportEstimationResultsToInterCatchFormat.R R/filterAndTidyRDBESDataObject.R R/filterRDBESDataObject.R R/filterRDBESEstObject.R R/findAndKillOrphans.R R/findOrphansByTable.R R/fixSLids.R R/generateMissingSSRows.R R/generateNAsUsingSL.R R/generateProbs.r R/generateTestTables.R R/generateZerosUsingSL.R R/getLinkedDataFromLevel.R R/getLowerTableSubsets.R R/getTablesInRDBESHierarchy.R R/importRDBESDataCSV.R R/importRDBESDataDFS.R R/importRDBESDataZIP.R R/killOrphans.R R/listPackageFunctions.R R/lowerTblData.R R/newRDBESDataObject.R R/printRDBESDataObject.R R/removeBrokenSpeciesListLinks.R R/removeBrokenVesselLinks.R R/runChecksOnSelectionAndProbs.R R/setRDBESDataObjectDataTypes.R R/sortRDBESDataObject.R R/startup.R R/summaryRDBESDataObject.R R/updateSAwithTaxonFromSL.R R/upperTblData.R R/utils.R R/validateRDBESDataObject.R R/validateRDBESDataObjectDataTypes.R R/validateRDBESDataObjectDuplicates.R R/validateRDBESDataObjectFieldNames.R R/validateRDBESEstObject.R

RDBEScore.Rproj

README.md

WGRDBES-EST/A Generalized Horvitz-Thompson Estimator.docx

WGRDBES-EST/README.md WGRDBES-EST/WGRDBES-EST_Resolution_2021-2023.pdf

WGRDBES-EST/WGRDBES_EST_Timeline.xlsx

WGRDBES-EST/meeting_notes/20220203_Meeting_Notes.docx

WGRDBES-EST/meeting_notes/20220204_Meeting_Notes.docx

WGRDBES-EST/newbies_guide/StyleGuide_WKRDB-EST_Annex8.pdf

WGRDBES-EST/newbies_guide/icesRDBES_guide_for_newbies_and_a_bit_more.pptx

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/Design.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/FishingOperation.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/FishingTrip.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/Sample.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/SamplingDetails.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/SpeciesList.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/SpeciesSelection.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/VesselDetails.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/VesselSelection.csv

WGRDBES-EST/personal/Kasia/vignettes/vignetteData/myObject.rds

WGRDBES-EST/personal/Kirsten/functions_from_dev.csv

WGRDBES-EST/personal/Kirsten/functions_from_fc7683c.csv

WGRDBES-EST/personal/Nuno/data/testDataPreparationFunctions.Rdata

WGRDBES-EST/personal/Nuno/example_script.R WGRDBES-EST/personal/Richard/R/test01.R WGRDBES-EST/personal/Richard/testingStuff.Rmd

WGRDBES-EST/presentations/20211215_IcesRDBES_estimation.pptx

WGRDBES-EST/presentations/README.md

WGRDBES-EST/references/A Generalized Horvitz-Thompson Estimator.docx

WGRDBES-EST/references/COST User Manual V1_1.pdf WGRDBES-EST/references/HAWG 2019 - Sec 01 Introduction.pdf WGRDBES-EST/references/README.md WGRDBES-EST/references/WGRDBES-EST Resolutions.pdf WGRDBES-EST/references/WKRDB-EST 2019.pdf WGRDBES-EST/references/WKRDB-EST2 2020.pdf WGRDBES-EST/references/Working Group on Governance of the Regional Database & Estimation System (WGRDBES-GOV; Outputs from 2020 meeting).pdf

codecov.yml

data-raw/add2PackageDataWGRDBES-EST_TEST_1.R data-raw/add2PackageDataWGRDBES-EST_TEST_3.R data-raw/create_H1_ExampleData.R data-raw/create_H5_ExampleData.R data-raw/create_H8_ExampleData.R

data-raw/dataFormat/RDBES Data Model CL CE.xlsx

data-raw/dataFormat/RDBES Data Model CS.xlsx

data-raw/dataFormat/RDBES Data Model VD SL.xlsx

data-raw/defaultRDBESFileNames.R

data-raw/exampleData/H1_2023_10_16.zip

data-raw/exampleData/H1_2025_02_11.zip

data-raw/exampleData/H5_2023_10_16.zip

data-raw/exampleData/H5_2025_02_11.zip

data-raw/exampleData/H8_2023_10_31.rds

data-raw/exampleData/H8_2025_02_11.rds

data-raw/exampleData/TextBookExamples/.gitignore

data-raw/exampleData/TextBookExamples/DownloadsFromRDBES/ZW_1965_WGRDBES-EST_TEST_1.zip

data-raw/exampleData/TextBookExamples/List_BookExamples.txt

data-raw/exampleData/TextBookExamples/Migrate_Pckg_survey_apiclus2_H1_to_new_format.R data-raw/exampleData/TextBookExamples/Migrate_Pckg_survey_apistrat_H1_to_new_format.R

data-raw/exampleData/TextBookExamples/README_GuidelinesForCreationOfTextBookExamples.txt

data-raw/exampleData/TextBookExamples/aux_TextBookExamples/IS_base.rds

data-raw/exampleData/TextBookExamples/aux_TextBookExamples/SL_base.rds

data-raw/exampleData/TextBookExamples/aux_TextBookExamples/VD_base.rds

data-raw/exampleData/madeUpExamples/aux_madeUpExamples/VD_base.rds

data-raw/exampleData/madeUpExamples/aux_madeUpExamples/create_guide.csv

data-raw/exampleData/madeUpExamples/create_WGRDBES-EST_TEST_3_MadeUpData_for_SL_SA_tests.R

data-raw/exampleData/madeUpExamples/downloadsFromRDBES/ZW_1965_WGRDBES-EST_TEST_3.zip

data-raw/exampleData/madeUpExamples/filesForUpload/WGRDBES-EST TEST 3_MadeUpData_for_SL_SA_tests/WGRDBES_EST_TEST_3_MadeUpData_for_SL_SA_tests_H1.csv

data-raw/exampleData/madeUpExamples/filesForUpload/WGRDBES-EST TEST 3_MadeUpData_for_SL_SA_tests/WGRDBES_EST_TEST_3_MadeUpData_for_SL_SA_tests_HSL.csv

data-raw/exampleData/madeUpExamples/filesForUpload/WGRDBES-EST TEST 3_MadeUpData_for_SL_SA_tests/WGRDBES_EST_TEST_3_MadeUpData_for_SL_SA_tests_HVD.csv

data-raw/getICESAphiaIds.R data-raw/getRDBESDataModelColumnNames.R data-raw/getTablesInHierarchies.r data-raw/getWoRMSData.R data-raw/saveDesignVariableNames.R

data-raw/styles.pptx

data-raw/xsd/BaseTypes.xsd

data-raw/xsd/H1.xsd

data-raw/xsd/H10.xsd

data-raw/xsd/H11.xsd

data-raw/xsd/H12.xsd

data-raw/xsd/H13.xsd

data-raw/xsd/H2.xsd

data-raw/xsd/H3.xsd

data-raw/xsd/H4.xsd

data-raw/xsd/H5.xsd

data-raw/xsd/H6.xsd

data-raw/xsd/H7.xsd

data-raw/xsd/H8.xsd

data-raw/xsd/H9.xsd

data-raw/xsd/HCE.xsd

data-raw/xsd/HCL.xsd

data-raw/xsd/HSL.xsd

data-raw/xsd/HVD.xsd

data/DefaultFileNames.rda

data/H1Example.rda

data/H5Example.rda

data/H8ExampleEE1.rda

data/MadeUpData_for_SL_SA_tests_v1.rda

data/Pckg_SDAResources_agsrs_H1.rda

data/Pckg_SDAResources_agstrat_H1.rda

data/Pckg_SDAResources_algebra_H1.rda

data/Pckg_SDAResources_coots_H1.rda

data/Pckg_SDAResources_coots_multistage_H1.rda

data/Pckg_SDAResources_gpa_H1.rda

data/Pckg_SDAResources_schools_H1.rda

data/Pckg_survey_apiclus1_v2_H1.rda

data/Pckg_survey_apiclus2_H1.rda

data/Pckg_survey_apiclus2_v2_H1.rda

data/Pckg_survey_apistrat_H1.rda

data/designVariables.rda

data/icesSpecWoRMS.rda

data/mapColNamesFieldR.rda

data/shrimps.rda

data/shrimpsStrat.rda

data/tablesInRDBESHierarchies.rda

data/wormsAphiaRecord.rda

docs/.nojekyll

docs/404.html

docs/LICENSE-text.html

docs/articles/estimating-rdbesdataobjects.html

docs/articles/generating-NAs-using-the-species-list.html

docs/articles/generating-probabilities.html

docs/articles/generating-zeros-using-the-species-list.html

docs/articles/index.html

docs/articles/manipulating-rdbesdataobjects.html

docs/articles/raw-data-import.html

docs/authors.html

docs/bootstrap-toc.css

docs/bootstrap-toc.js

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/pkgdown_script.R

docs/reference/H1Example.html

docs/reference/H5Example.html

docs/reference/H8ExampleEE1.html

docs/reference/MadeUpData_for_SL_SA_tests_v1.html

docs/reference/Pckg_SDAResources_agsrs_H1.html

docs/reference/Pckg_SDAResources_agstrat_H1.html

docs/reference/Pckg_SDAResources_algebra_H1.html

docs/reference/Pckg_SDAResources_coots_H1.html

docs/reference/Pckg_SDAResources_coots_multistage_H1.html

docs/reference/Pckg_SDAResources_gpa_H1.html

docs/reference/Pckg_SDAResources_schools_H1.html

docs/reference/Pckg_survey_apiclus1_v2_H1.html

docs/reference/Pckg_survey_apiclus2_H1.html

docs/reference/Pckg_survey_apiclus2_v2_H1.html

docs/reference/Pckg_survey_apistrat_H1.html

docs/reference/RDBESDataObject-methods.html

docs/reference/Rplot001.png

docs/reference/applyGenerateProbs.html

docs/reference/as.integer.or.dbl.html

docs/reference/check_key_column.html

docs/reference/combineRDBESDataObjects.html

docs/reference/convert.col.names.html

docs/reference/createDBEPrepObj.html

docs/reference/createRDBESDataObject.html

docs/reference/createRDBESEstObject.html

docs/reference/createTableOfRDBESIds.html

docs/reference/designVariables.html

docs/reference/doDBEestimantionObjUpp.html

docs/reference/doDBestimation.html

docs/reference/doEstimationForAllStrata.html

docs/reference/estim.html

docs/reference/estimMC.html

docs/reference/fileExt.html

docs/reference/filterAndTidyRDBESDataObject.html

docs/reference/filterRDBESDataObject.html

docs/reference/findAndKillOrphans.html

docs/reference/findOrphansByTable.html

docs/reference/fixSLids.html

docs/reference/generateMissingSSRows.html

docs/reference/generateNAsUsingSL.html

docs/reference/generateProbs.html

docs/reference/generateSSRows.html

docs/reference/generateTestTbls.html

docs/reference/generateZerosUsingSL.html

docs/reference/getEstimForStratum.html

docs/reference/getMissingSSCatchFraction.html

docs/reference/getSubSampleLevel.html

docs/reference/getTablesInRDBESHierarchy.html

docs/reference/icesSpecWoRMS.html

docs/reference/importRDBESDataCSV.html

docs/reference/importRDBESDataDFS.html

docs/reference/importRDBESDataZIP.html

docs/reference/index.html

docs/reference/is.zip.html

docs/reference/killOrphans.html

docs/reference/makeTbl.html

docs/reference/mapColNamesFieldR.html

docs/reference/newRDBESDataObject.html

docs/reference/procRDBESEstObjLowHier.html

docs/reference/procRDBESEstObjUppHier.html

docs/reference/removeBrokenSpeciesListLinks.html

docs/reference/removeBrokenVesselLinks.html

docs/reference/removePrefixFromVarNames.html

docs/reference/runChecksOnSelectionAndProbs.html

docs/reference/setRDBESDataObjectDataTypes.html

docs/reference/shrimps.html

docs/reference/shrimpsStrat.html

docs/reference/tablesInRDBESHierarchies.html

docs/reference/validateRDBESDataObject.html

docs/reference/validateRDBESDataObjectDataTypes.html

docs/reference/validateRDBESDataObjectDuplicates.html

docs/reference/validateRDBESDataObjectFieldNames.html

docs/reference/validateRDBESEstObject.html

docs/reference/wormsAphiaRecord.html

docs/sitemap.xml

inst/extdata/H1_Example.rds

inst/extdata/H1_Example.zip

inst/extdata/HSL_Example.zip

inst/extdata/VesselSelection.csv

man/DefaultFileNames.Rd man/H1Example.Rd man/H5Example.Rd man/H8ExampleEE1.Rd man/MadeUpData_for_SL_SA_tests_v1.Rd man/Pckg_SDAResources_agsrs_H1.Rd man/Pckg_SDAResources_agstrat_H1.Rd man/Pckg_SDAResources_algebra_H1.Rd man/Pckg_SDAResources_coots_H1.Rd man/Pckg_SDAResources_coots_multistage_H1.Rd man/Pckg_SDAResources_gpa_H1.Rd man/Pckg_SDAResources_schools_H1.Rd man/Pckg_survey_apiclus1_v2_H1.Rd man/Pckg_survey_apiclus2_H1.Rd man/Pckg_survey_apiclus2_v2_H1.Rd man/Pckg_survey_apistrat_H1.Rd man/RDBESDataObject-methods.Rd man/addCLtoLowerCS.Rd man/applyGenerateProbs.Rd man/as.integer.or.dbl.Rd man/check_key_column.Rd man/combineRDBESDataObjects.Rd man/convert.col.names.Rd man/createDBEPrepObj.Rd man/createRDBESDataObject.Rd man/createRDBESEstObject.Rd man/createTableOfRDBESIds.Rd man/designVariables.Rd man/doBVestimCANUM.Rd man/doDBEestimantionObjUpp.Rd man/doDBestimation.Rd man/doEstimationForAllStrata.Rd man/doEstimationRatio.Rd man/estim.Rd man/estimMC.Rd man/exportEstimationResultsToInterCatchFormat.Rd man/fileExt.Rd man/filterAndTidyRDBESDataObject.Rd man/filterRDBESDataObject.Rd man/filterRDBESEstObject.Rd man/findAndKillOrphans.Rd man/findOrphansByTable.Rd man/fixSLids.Rd man/generateMissingSSRows.Rd man/generateNAsUsingSL.Rd man/generateProbs.Rd man/generateSSRows.Rd man/generateTestTbls.Rd man/generateZerosUsingSL.Rd man/getEstimForStratum.Rd man/getHelpFile.Rd man/getLinkedDataFromLevel.Rd man/getLowerTableSubsets.Rd man/getMissingSSCatchFraction.Rd man/getRdTitle.Rd man/getSubSampleLevel.Rd man/getTablesInRDBESHierarchy.Rd man/icesSpecWoRMS.Rd man/importRDBESDataCSV.Rd man/importRDBESDataDFS.Rd man/importRDBESDataZIP.Rd man/is.zip.Rd man/killOrphans.Rd man/listPackageFunctions.Rd man/lowerTblData.Rd man/makeTbl.Rd man/mapColNamesFieldR.Rd man/newRDBESDataObject.Rd man/procRDBESEstObjLowHier.Rd man/procRDBESEstObjUppHier.Rd man/removeBrokenSpeciesListLinks.Rd man/removeBrokenVesselLinks.Rd man/runChecksOnSelectionAndProbs.Rd man/setRDBESDataObjectDataTypes.Rd man/shrimps.Rd man/shrimpsStrat.Rd man/tablesInRDBESHierarchies.Rd man/updateSAwithTaxonFromSL.Rd man/upperTblData.Rd man/validateRDBESDataObject.Rd man/validateRDBESDataObjectDataTypes.Rd man/validateRDBESDataObjectDuplicates.Rd man/validateRDBESDataObjectFieldNames.Rd man/validateRDBESEstObject.Rd man/wormsAphiaRecord.Rd package_overview.Rmd tests/testthat.R

tests/testthat/h1_v_1_19_18/BiologicalVariable.csv

tests/testthat/h1_v_1_19_18/CommercialEffort.csv

tests/testthat/h1_v_1_19_18/CommercialLanding.csv

tests/testthat/h1_v_1_19_18/DE.csv

tests/testthat/h1_v_1_19_18/Design.csv

tests/testthat/h1_v_1_19_18/FishingOperation.csv

tests/testthat/h1_v_1_19_18/FishingTrip.csv

tests/testthat/h1_v_1_19_18/FrequencyMeasure.csv

tests/testthat/h1_v_1_19_18/H1_2023_10_16.zip

tests/testthat/h1_v_1_19_18/HCE_2023_10_16.zip

tests/testthat/h1_v_1_19_18/HCL_2023_10_16_.zip

tests/testthat/h1_v_1_19_18/HSL_2023_10_16.zip

tests/testthat/h1_v_1_19_18/HVD_2023_10_16.zip

tests/testthat/h1_v_1_19_18/SD.csv

tests/testthat/h1_v_1_19_18/Sample.csv

tests/testthat/h1_v_1_19_18/SamplingDetails.csv

tests/testthat/h1_v_1_19_18/SpeciesList.csv

tests/testthat/h1_v_1_19_18/SpeciesSelection.csv

tests/testthat/h1_v_1_19_18/VesselDetails.csv

tests/testthat/h1_v_1_19_18/VesselSelection.csv

tests/testthat/h1_v_1_19_18/ZW_1965_WGRDBES-EST_TEST_1.zip

tests/testthat/h1_v_1_19_26/BadVesselIdentifiers/CommercialLanding.csv

tests/testthat/h1_v_1_19_26/BiologicalVariable.csv

tests/testthat/h1_v_1_19_26/CommercialEffort.csv

tests/testthat/h1_v_1_19_26/CommercialLanding.csv

tests/testthat/h1_v_1_19_26/DE.csv

tests/testthat/h1_v_1_19_26/Design.csv

tests/testthat/h1_v_1_19_26/FishingOperation.csv

tests/testthat/h1_v_1_19_26/FishingTrip.csv

tests/testthat/h1_v_1_19_26/FrequencyMeasure.csv

tests/testthat/h1_v_1_19_26/H1_2023_10_16.zip

tests/testthat/h1_v_1_19_26/H1_2023_10_16_fd.zip

tests/testthat/h1_v_1_19_26/H1_H2_2023_10_16_fd.zip

tests/testthat/h1_v_1_19_26/HCE_2023_10_16.zip

tests/testthat/h1_v_1_19_26/HCL_2023_10_16_.zip

tests/testthat/h1_v_1_19_26/HSL_2023_10_16.zip

tests/testthat/h1_v_1_19_26/HVD_2023_10_16.zip

tests/testthat/h1_v_1_19_26/SD.csv

tests/testthat/h1_v_1_19_26/Sample.csv

tests/testthat/h1_v_1_19_26/SamplingDetails.csv

tests/testthat/h1_v_1_19_26/SpeciesList.csv

tests/testthat/h1_v_1_19_26/SpeciesSelection.csv

tests/testthat/h1_v_1_19_26/VesselDetails.csv

tests/testthat/h1_v_1_19_26/VesselSelection.csv

tests/testthat/h1_v_1_19_26/ZW_1965_WGRDBES-EST_TEST_1.zip

tests/testthat/h1_v_20250211/BadVesselIdentifiers/CommercialLanding.csv

tests/testthat/h1_v_20250211/BiologicalVariable.csv

tests/testthat/h1_v_20250211/CommercialEffort.csv

tests/testthat/h1_v_20250211/CommercialLanding.csv

tests/testthat/h1_v_20250211/DE.csv

tests/testthat/h1_v_20250211/Design.csv

tests/testthat/h1_v_20250211/FishingOperation.csv

tests/testthat/h1_v_20250211/FishingTrip.csv

tests/testthat/h1_v_20250211/FrequencyMeasure.csv

tests/testthat/h1_v_20250211/H1_Example.zip

tests/testthat/h1_v_20250211/H1_Example_fd.zip

tests/testthat/h1_v_20250211/H1_H2_Example_fd.zip

tests/testthat/h1_v_20250211/HSL_Example.zip

tests/testthat/h1_v_20250211/HVD_Example.zip

tests/testthat/h1_v_20250211/IndividualSpecies.csv

tests/testthat/h1_v_20250211/SD.csv

tests/testthat/h1_v_20250211/Sample.csv

tests/testthat/h1_v_20250211/SamplingDetails.csv

tests/testthat/h1_v_20250211/SpeciesList.csv

tests/testthat/h1_v_20250211/SpeciesSelection.csv

tests/testthat/h1_v_20250211/VesselDetails.csv

tests/testthat/h1_v_20250211/VesselSelection.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/BiologicalVariable.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/Design.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/Disclaimer.txt

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/FishingOperation.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/FishingTrip.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/FrequencyMeasure.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/IndividualSpecies.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/Sample.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/SamplingDetails.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/SpeciesList.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/SpeciesSelection.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/VesselDetails.csv

tests/testthat/h1_v_20250211/ZW_1965_WGRDBES-EST_TEST_1/VesselSelection.csv

tests/testthat/h5_v_1_19_18/2023_10_16_112208.zip

tests/testthat/h5_v_1_19_18/BiologicalVariable.csv

tests/testthat/h5_v_1_19_18/CommercialEffort.csv

tests/testthat/h5_v_1_19_18/CommercialLanding.csv

tests/testthat/h5_v_1_19_18/Design.csv

tests/testthat/h5_v_1_19_18/FishingTrip.csv

tests/testthat/h5_v_1_19_18/FrequencyMeasure.csv

tests/testthat/h5_v_1_19_18/LandingEvent.csv

tests/testthat/h5_v_1_19_18/OnshoreEvent.csv

tests/testthat/h5_v_1_19_18/Sample.csv

tests/testthat/h5_v_1_19_18/SamplingDetails.csv

tests/testthat/h5_v_1_19_18/SpeciesList.csv

tests/testthat/h5_v_1_19_18/SpeciesSelection.csv

tests/testthat/h5_v_1_19_18/VesselDetails.csv

tests/testthat/h5_v_1_19_26/2023_10_16_112208.zip

tests/testthat/h5_v_1_19_26/BiologicalVariable.csv

tests/testthat/h5_v_1_19_26/CommercialEffort.csv

tests/testthat/h5_v_1_19_26/CommercialLanding.csv

tests/testthat/h5_v_1_19_26/Design.csv

tests/testthat/h5_v_1_19_26/FishingTrip.csv

tests/testthat/h5_v_1_19_26/FrequencyMeasure.csv

tests/testthat/h5_v_1_19_26/LandingEvent.csv

tests/testthat/h5_v_1_19_26/OnshoreEvent.csv

tests/testthat/h5_v_1_19_26/Sample.csv

tests/testthat/h5_v_1_19_26/SamplingDetails.csv

tests/testthat/h5_v_1_19_26/SpeciesList.csv

tests/testthat/h5_v_1_19_26/SpeciesSelection.csv

tests/testthat/h5_v_1_19_26/VesselDetails.csv

tests/testthat/h5_v_20250211/BiologicalVariable.csv

tests/testthat/h5_v_20250211/CommercialEffort.csv

tests/testthat/h5_v_20250211/CommercialLanding.csv

tests/testthat/h5_v_20250211/Design.csv

tests/testthat/h5_v_20250211/FishingTrip.csv

tests/testthat/h5_v_20250211/FrequencyMeasure.csv

tests/testthat/h5_v_20250211/IndividualSpecies.csv

tests/testthat/h5_v_20250211/LandingEvent.csv

tests/testthat/h5_v_20250211/OnshoreEvent.csv

tests/testthat/h5_v_20250211/Sample.csv

tests/testthat/h5_v_20250211/SamplingDetails.csv

tests/testthat/h5_v_20250211/SpeciesList.csv

tests/testthat/h5_v_20250211/SpeciesSelection.csv

tests/testthat/h5_v_20250211/VesselDetails.csv

tests/testthat/h7_v_1_19_18/2022_FPN_FPE_H7.zip

tests/testthat/h7_v_1_19_18/2023_10_16_112208.zip

tests/testthat/h7_v_1_19_18/BiologicalVariable.csv

tests/testthat/h7_v_1_19_18/CommercialEffort.csv

tests/testthat/h7_v_1_19_18/CommercialLanding.csv

tests/testthat/h7_v_1_19_18/Design.csv

tests/testthat/h7_v_1_19_18/FishingTrip.csv

tests/testthat/h7_v_1_19_18/FrequencyMeasure.csv

tests/testthat/h7_v_1_19_18/LandingEvent.csv

tests/testthat/h7_v_1_19_18/OnshoreEvent.csv

tests/testthat/h7_v_1_19_18/Sample.csv

tests/testthat/h7_v_1_19_18/SamplingDetails.csv

tests/testthat/h7_v_1_19_18/SpeciesList.csv

tests/testthat/h7_v_1_19_18/SpeciesSelection.csv

tests/testthat/h7_v_1_19_18/VesselDetails.csv

tests/testthat/h7_v_1_19_26/2022_FPN_FPE_H7.zip

tests/testthat/h7_v_1_19_26/2023_10_16_112208.zip

tests/testthat/h7_v_1_19_26/BiologicalVariable.csv

tests/testthat/h7_v_1_19_26/CommercialEffort.csv

tests/testthat/h7_v_1_19_26/CommercialLanding.csv

tests/testthat/h7_v_1_19_26/Design.csv

tests/testthat/h7_v_1_19_26/FishingTrip.csv

tests/testthat/h7_v_1_19_26/FrequencyMeasure.csv

tests/testthat/h7_v_1_19_26/LandingEvent.csv

tests/testthat/h7_v_1_19_26/OnshoreEvent.csv

tests/testthat/h7_v_1_19_26/Sample.csv

tests/testthat/h7_v_1_19_26/SamplingDetails.csv

tests/testthat/h7_v_1_19_26/SpeciesList.csv

tests/testthat/h7_v_1_19_26/SpeciesSelection.csv

tests/testthat/h7_v_1_19_26/VesselDetails.csv

tests/testthat/h8_v_1_19_18/2022_SPR_H8.zip

tests/testthat/h8_v_1_19_26/2022_SPR_H8.zip

travis.yml

vignettes/.gitignore

vignettes/create-IC-output-from-estimation-results.Rmd vignettes/estimating-rdbesdataobjects.Rmd vignettes/generating-NAs-using-the-species-list.Rmd vignettes/generating-probabilities.Rmd vignettes/generating-zeros-using-the-species-list.Rmd vignettes/manipulating-rdbesdataobjects.Rmd vignettes/ratio-estimating-rdbesdataobjects.Rmd vignettes/raw-data-import.Rmd vignettes/update-SA-with-taxon-from-SL.Rmd

ices-tools-dev/icesRDBES documentation built on April 17, 2025, 1:58 p.m.

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Functions for the ICES Regional Database and Estimation System (RDBES)

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Functions for the ICES Regional Database and Estimation System (RDBES)

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ices-tools-dev/icesRDBES Functions for the ICES Regional Database and Estimation System (RDBES)

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Functions for the ICES Regional Database and Estimation System (RDBES)

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Functions for the ICES Regional Database and Estimation System (RDBES)