Man pages for ices-tools-dev/icesRDBES
Functions for the ICES Regional Database and Estimation System (RDBES)
| addCLtoLowerCS | Add CL data to a lower-level CS table in an RDBESDataObject |
| applyGenerateProbs | Generate probabilities missing from RDBES Data |
| as.integer.or.dbl | as.integer.or.dbl |
| check_key_column | Check if a column exists in a data table and has unique... |
| combineRDBESDataObjects | Combine Two RDBES Raw Objects combines 2 RDBESDataObjects... |
| convert.col.names | convert.col.names |
| createDBEPrepObj | Load raw object and create prepared object Function relies on... |
| createRDBESDataObject | Create an RDBES Data Object |
| createRDBESEstObject | Creates an rdbesEStObject from prepared RDBES data |
| createTableOfRDBESIds | Create a table of RDBES Ids |
| DefaultFileNames | The default files names when you download data from the... |
| designVariables | A dataset containing the RDBES "design variable" names |
| doBVestimCANUM | Estimate Catch at Number (CANUM) for Biological Variables |
| doDBEestimantionObjUpp | Generates the DBE estimation object for the upper hierarchy... |
| doDBestimation | Create design-based point and variance estimates from RDBES... |
| doEstimationForAllStrata | Estimate totals and means, and try to generate samples... |
| doEstimationRatio | Estimate Numbers and Mean Values by Length or Age Class |
| estim | Generic function for estimation of population total and... |
| estimMC | Multiple Count Estimator for Population Total and Variance |
| exportEstimationResultsToInterCatchFormat | Export Estimation Results to InterCatch Exchange Format |
| fileExt | fileExt |
| filterAndTidyRDBESDataObject | Filter and remove orphan records in an RDBESDataObject |
| filterRDBESDataObject | Filter an RDBESDataObject |
| filterRDBESEstObject | Filter an RDBESEstObject |
| findAndKillOrphans | This function finds and removed any orphan records in an... |
| findOrphansByTable | Internal function to identify orphan records in a given... |
| fixSLids | Fixes SLid in SL table (facilitating SS-SL joins). |
| generateMissingSSRows | Generate any missing SS rows. When FOcatchReg=="All" it is... |
| generateNAsUsingSL | Generate NAs in samples using Species List information |
| generateProbs | Generate vector of selection or inclusion probabilities |
| generateSSRows | Private function to generate SS rows |
| generateTestTbls | Generate a List of Related Data Tables |
| generateZerosUsingSL | Generate zeros in samples using Species List information |
| getEstimForStratum | Private function used by doEstimationForAllStrata to get the... |
| getHelpFile | Get Help File from Rd Database |
| getLinkedDataFromLevel | Retrieve Linked Data Between RDBES Tables at a Specified... |
| getLowerTableSubsets | Get Lower Table from Several Upper Table Fields |
| getMissingSSCatchFraction | Private function to find which FO rows are not matching SS |
| getRdTitle | Extract Title from an Rd Object |
| getSubSampleLevel | Private function to get sub-sample level and top-level SAid... |
| getTablesInRDBESHierarchy | Returns the tables for a given hierarchy |
| H1Example | A dataset containing test RDBES data for H1 in the... |
| H5Example | A dataset containing test RDBES data for H5 in the... |
| H8ExampleEE1 | A dataset containing test RDBES data for H8 in the... |
| icesSpecWoRMS | A dataset containing a copy of the icesSpecWoRMS code list.... |
| importRDBESDataCSV | Create an RDBES Raw Object |
| importRDBESDataDFS | Convert List of Data Frames to a RDBES Data Object |
| importRDBESDataZIP | Import RDBES Downloaded Data |
| is.zip | is.zip |
| killOrphans | Internal function to remove orphan records from an... |
| listPackageFunctions | Extract Functions and Descriptions from an R Package |
| lowerTblData | Get lower table data from upper table id |
| MadeUpData_for_SL_SA_tests_v1 | A made-up dataset for testing manipulations of SA based on SL |
| makeTbl | Generate a Data Table |
| mapColNamesFieldR | A dataset containing the mapping from database column names... |
| newRDBESDataObject | Constructor for RDBESDataObject class |
| Pckg_SDAResources_agsrs_H1 | A RDBESDataObject converted from package SDAResources dataset... |
| Pckg_SDAResources_agstrat_H1 | A RDBESDataObject converted from package SDAResources dataset... |
| Pckg_SDAResources_algebra_H1 | A RDBESDataObject converted from package SDAResources dataset... |
| Pckg_SDAResources_coots_H1 | A RDBESDataObject converted from package SDAResources dataset... |
| Pckg_SDAResources_coots_multistage_H1 | A Multi-stage RDBESDataObject from package SDAResources... |
| Pckg_SDAResources_gpa_H1 | A RDBESDataObject converted from package SDAResources dataset... |
| Pckg_SDAResources_schools_H1 | A RDBESDataObject converted from package SDAResources dataset... |
| Pckg_survey_apiclus1_v2_H1 | A RDBESDataObject converted from package survey dataset... |
| Pckg_survey_apiclus2_H1 | A Multi-Stage RDBESDataObject converted from package survey... |
| Pckg_survey_apiclus2_v2_H1 | A Clustered RDBESDataObject converted from package survey... |
| Pckg_survey_apistrat_H1 | A RDBESDataObject converted from package survey dataset... |
| procRDBESEstObjLowHier | Private function to process the lower hierarchies when... |
| procRDBESEstObjUppHier | Private function to process the upper hierarchies when... |
| RDBESDataObject-methods | Print method for RDBESDataObject |
| removeBrokenSpeciesListLinks | Remove rows which are not pointing to a valid... |
| removeBrokenVesselLinks | Remove rows which are not pointing to a valid VesselDetails... |
| runChecksOnSelectionAndProbs | Run basic checks on selection methods and probabilities |
| setRDBESDataObjectDataTypes | For a given RDBESDataObject convert the required columns to... |
| shrimps | One quarter of sample data from swedish shrimp landings of... |
| shrimpsStrat | One quarter of sample data from swedish shrimp catches of the... |
| tablesInRDBESHierarchies | The tables required for each RDBES hierarchy. |
| updateSAwithTaxonFromSL | Function which changes the value of SAspeCode in SA. |
| upperTblData | Get Field from Upper Table |
| validateRDBESDataObject | Check Whether an 'RDBESDataObject' is in a Valid Format |
| validateRDBESDataObjectDataTypes | Checks the data types of the columns in an RDBESDataObject... |
| validateRDBESDataObjectDuplicates | check RDBES Raw Object Content Private function to do some... |
| validateRDBESDataObjectFieldNames | check RDBES Data Object field names Private function to do... |
| validateRDBESEstObject | Check whether an object is a valid RDBESEstObject |
| wormsAphiaRecord | A dataset containing aphia records for species found in... |
