nsim

The number of simulations. For example, if OM@nsim=10 10 samples will be drawn for each parameter in the Stock, Fleet, Obs, and Imp objects, and 10 independent simulations will be run.

proyears

The number of time-steps (default is years) in the projection period.

interval

The management interval (default is years). For example, if OM@interval=4, the management procedures will be applied every 4th year (i.e., the first projection year, 4th, 8th, etc). Management regulations (e.g., TAC, TAE, size regulation or spatial closure) remain unchanged in the interim years.

If OM@interval is length 1, the same management interval will be used for all MPs.

To set MP-specific management intervals, set OM@interval to be the same length as the MPs specified in the argument for runMSE.

reps and pstar

For management procedures that calculate a stochastic distribution of management recommendations, the reps argument specifies the number of samples.

For example:

# apply the average catch MP to example data
Rec <- AvC(1, SimulatedData, reps=10)
# distribution of average catch - AvC assumes of log-normal s.d of 0.2
Rec@TAC

##  [1] 1566.187 1982.020 2005.265 2218.752 2145.720 2166.835 2654.440 1551.105
##  [9] 3379.073 2070.397

The pstar argument species the percentile used to calculate the management recommendation (default is 0.5, i.e., median):

OM <- testOM
OM@pstar <- 0.2
quantile(Rec@TAC, OM@pstar)

##      20% 
## 1898.854

Default for many OMs is reps=1, in which case the MPs return the median value (uncertainty is ignored).

For obvious reasons, reps should either be 1, or some large number so that the distribution is stable enough that to use the pstar percentile.

maxF

Specifies the maximum instantaneous fishing mortality for any single age class. Used to prevent unrealistically high Fs on any single age class.

Default value for new OMs is 0.8.

seed

OM@seed is the seed for the random number generator and is used ensure the analysis will be reproduced identically.

cpars

The cpars slot is a list for providing custom parameters, used to override the default uniform distributions in the Stock, Fleet, Obs, and Imp objects.

See the Custom Parameters section for more details.