makemov2: Calculates movement matrices from user inputs for fraction in...

In Blue-Matter/MSEtool: Management Strategy Evaluation Toolkit

Calculates movement matrices from user inputs for fraction in each area (fracs) the relative fraction moving to other areas, plus a mean probability of staying in any given area.

Description

A function for calculating a movement matrix from user specified distribution among areas (v) and relative movement to other areas (solves for positive diagonal - vector of prob staying). Used by simmov2 to generate movement matrices for an operating model. There must be a prior on the positive diagonal of the movement matrix or these will tend to 1 and hence perfectly satisfy the requirement V = MV.

Usage

makemov2(
  dist = c(0.05, 0.6, 0.35),
  prob = 0.5,
  probE = 1,
  frac_other = matrix(c(NA, 2, 1, 2, NA, 1, 1, 2, NA), nrow = 3, byrow = T),
  plot = F
)

Arguments

dist	A vector nareas long of fractions of unfished stock biomass in each area
prob	A vector of the probability of individuals staying in each area or a single value for the mean probability of staying among all areas
probE	The logit CV associated with prob (used as a penalty when optimizing for diagonal)
frac_other	A matrix nareas x nareas that specifies the relative fraction moving from one area to the others. The positive diagonal is unspecified.
plot	Should the convergence to a stable distribution be plotted?

Author(s)

T. Carruthers

See Also

simmov2

Blue-Matter/MSEtool documentation built on Nov. 22, 2024, 8:23 p.m.