kobe (version 1.3.2)

kobeSS: Reads SS assessment results and returns stock and harvest rate relative to MSY reference points

Description

Reads in derived posteriors from text files generated by SS, 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; year 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

kobeSS(object,nrows=-1,thin=1, what=c("sims","trks","pts","smry","wrms")[1],  prob=c(0.75,0.5,0.25), year=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.

year

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

nwrms

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

See Also

kobeAspic,kobe2box,kobeSS

Examples

## Not run: 
# kobeSS(...)
# ## End(Not run)