plot.vast.influ: Influence plot for fitted model from fit.vast. Currently...

In PacificCommunity/ofp-sam-vast-utils: Utility functions for applying VAST to analysis of WCPFC tuna fisheries data.

Description

Influence plot for fitted model from fit.vast. Currently assumes only one set of interactions and no splines on catchability.

Usage

plot.vast.influ(
  vast.output,
  model.start.year = 1952,
  coef.names = c("flg.grp", "syn.hbf.imb"),
  level.names = c("Flag group", "HBF (pred)"),
  error.structure = "dln",
  pt.alpha = 0.2,
  smooth.span = 0.1,
  save.dir,
  save.name
)

Arguments

vast.output	The output from a fit.vast function call
model.start.year	An integer denoting the first year of data used in the model
coef.names	Character vector of the factors used to create Q_ik
level.names	Character vector of how to name the factors in the plot
error.structure	Character string denoting the error structure used to fit the model. This is needed to backtransform the parameter estimates.
pt.alpha	alpha transparency of quarterly points or uncertainty band.
smooth.span	Degree of smoothing used. Value between 0 and 1, where closer to 1 is more smooth.
save.dir	Path to the directory where the outputs will be saved
save.name	Name stem for the output, useful when saving many model outputs in the same directory

PacificCommunity/ofp-sam-vast-utils documentation built on Nov. 2, 2020, 7:05 p.m.