kobeSS3: Reads SS3 results and returns stock and harvest rate relative to MSY reference points

Description

Reads in derived posteriors from text files generated by SS3, i.e. assessment and projection and returns time series or summaries of B:BMSY and F:FMSY what specifies how data are returned, i.e. sims bootstraps for all years; trks percentiles given by prob; pts selected year(s) given by pts; smRY probabilities of being in the kobe quadrants and; wrms bootstraps selected at random. If of length 1 then a data.frame is returned, if >1 then a list of data.frames.

Usage

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  kobeSS3(object,nrows=-1,thin=1,
          what=c("sims","trks","pts","smry","wrms")[1], 
          prob=c(0.75,0.5,0.25),pts=NULL,yrs=NULL,nwrms=10)

Arguments

object

character: derived posteriors file with MCMC runs.

nrows

numeric; if -ve reads all rowss, otherwise takes the 1st nrows from the file.

thin

numeric; thinning rate for chain.

what

character; specifies the form of data returned.

prob

numeric; probabilities with values in [0,1] for percentiles returned if what["trks"] selected.

pts

numeric; year(s) for points if what["pts"] selected.

yrs

numeric; year(s) for historical estimates.

nwrms

numeric; number of trajectories sampled at random to return if what["wrms"] selected.

See Also

kobeAspic,kobe2box,kobeSS3

Examples

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## Not run: 
kobeSS3(...)

## End(Not run)

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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