Tabulates the covariance between age groups of (number) at age from MCMC simulations using Reca.
MCMC simulations are typically obtained with RunRecaModels.
Covariances are obtained from the posterior distribution.
If 'RecaCatchAtAge' contains estimate for a set of aggregation variables, such as area, gear, stock, etc., covariances are calculated between age groups for each of these aggregation variables.
Rounding of numbers according to the argument 'Decimals' is done with round,
so that negative numbers specify rounding to powers of ten, and rounding of the digit 5 is towards the even digit.
The units considered valid for catch at age in numbers are those listed for quantity 'cardinaltiy' in StoxUnits
Usage
ReportRecaCatchAtAgeCovariance(
RecaCatchAtAge,
PlusGroup = integer(),
Decimals = integer(),
Unit = RstoxData::getUnitOptions("cardinality", conversionRange = c(1, 1e+12))
)Arguments
- RecaCatchAtAge
Results from MCMC simulations (
RecaCatchAtAge).- PlusGroup
If given, ages 'PlusGroup' or older are included in a plus group.
- Decimals
integer specifying the number of decimals to report for 'Covariance'. Defaults to 0.
- Unit
unit for 'CatchAtAge'. Covariance will be provided as the square of this unit.
See also
RunRecaModels for running Reca-analysis and ReportRecaCatchAtLength for reporting length composition.
Examples
covariances <- RstoxFDA::ReportRecaCatchAtAgeCovariance(RstoxFDA::RecaCatchAtAgeExample,
PlusGroup = 13)
covariances$CovarianceNbyAge
#> VariableId1 VariableId2 Covariance
#> 1: Age 1 Age 1 1008325267
#> 2: Age 10 Age 1 -343051776
#> 3: Age 11 Age 1 151223129
#> 4: Age 12 Age 1 -187509543
#> 5: Age 13+ Age 1 233715735
#> ---
#> 165: Age 5 Age 9 -69406163910
#> 166: Age 6 Age 9 5930467623
#> 167: Age 7 Age 9 -9485655460
#> 168: Age 8 Age 9 -28954943730
#> 169: Age 9 Age 9 55496753071