kobeSS3: Reads SS3 results and returns stock and harvest rate relative...

In kobe: Tools for the provision of scientific fisheries management advice

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

  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

## Not run: 
kobeSS3(...)

## End(Not run)

kobe documentation built on May 30, 2017, 12:15 a.m.