Description Usage Arguments Details Value
Function to get estimated/predicted fishery-related quantities from several model runs.
1 2 3 4 5 | getMDFR.FisheryQuantities(obj, type = c("bio.retm", "bio.dscm", "bio.totm",
"prNatZ.ret", "prNatZ.tot", "PRs.ret", "PRs.tot", "mnPrNatZ.ret",
"mnPrNatZ.tot", "sel_cxz", "sel_yxz", "ret_yxz", "zscores.tot", "zscores.ret",
"effSS.ret", "effSS.tot", "qFsh_xy", "maxFc_xy", "max rates", "mean rates"),
ci = 0.8, pdfType = c("norm2", "normal", "lognormal"), verbose = FALSE)
|
obj |
- object that can be converted into a list of tcsam2013.resLst objects |
type |
- fishery-related quantity to retrieve |
ci |
- confidence interval for error bars on observations |
pdfType |
- type of error distribution for observations |
verbose |
- flag (T/F) to print debug info |
Potential values for 'type' are:
'bio.retm' - retained catch mortality (1000's t)
'bio.dscm' - discard catch mortality (1000's t) for males in directed fishery
'bio.totm' - total catch mortality (1000's t)
'prNatZ.ret' - annual retained catch proportions-at-size
'prNatZ.tot' - annual total catch proportions-at-size
'PRs.ret' - pearsons residuals for retained catch proportions-at-size
'PRs.tot' - pearsons residuals for total catch proportions-at-size
'mnPrNatZ.ret' - mean proportions-at-size for retained catch data
'mnPrNatZ.tot' - mean proportions-at-size for total catch data
'sel_cxz' - fishery selectivity and retention functions, by time period and sex
'sel_yxz' - fishery selectivity functions, by year and sex
'ret_yxz' - fishery retention functions, by year and sex
'zscores.tot' - annual z-scores for fits to total catch biomass
'zscores.ret' - annual z-scores for fits to retained catch biomass
'effSS.tot' - effective (and input) sample sizes for total catch size comps
'effSS.ret' - effective (and input) sample sizes for retained catch size comps
'qFsh_xy' - annual fishery catchabilities
'maxFc_xy' - annual max capture rates
'max rates' - max fishing mortality, retained mortality, and capture rates
'mean rates' - mean fishing mortality, retained mortality, and capture rates
Requires sqldf package.
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