Get total predation mortality rate needed to project standard mizer model

Calculates the total predation mortality rate \(\mu_{p,i}(w_p)\) (in units of 1/year) on each prey species by prey size: $$\mu_{p.i}(w_p) = \sum_j {\tt pred\_rate}_j(w_p)\, \theta_{ji}.$$ You would not usually call this function directly but instead use getPredMort(), which then calls this function unless an alternative function has been registered, see below.

Usage

mizerPredMort(params, n, n_pp, n_other, t, pred_rate, ...)

Arguments

params

A MizerParams object

n

A matrix of species abundances (species x size).

n_pp

A vector of the resource abundance by size

n_other

A list of abundances for other dynamical components of the ecosystem

t

The time for which to do the calculation (Not used by standard mizer rate functions but useful for extensions with time-dependent parameters.)

pred_rate

A two dimensional array (predator species x predator size) with the feeding level.

...

Unused

Value

A two dimensional array (prey species x prey size) with the predation mortality

Your own predation mortality function

By default getPredMort() calls mizerPredMort(). However you can replace this with your own alternative predation mortality function. If your function is called "myPredMort" then you register it in a MizerParams object params with

params <- setRateFunction(params, "PredMort", "myPredMort")

Your function will then be called instead of mizerPredMort(), with the same arguments.

See also

Other mizer rate functions: mizerEGrowth(), mizerERepro(), mizerEReproAndGrowth(), mizerEncounter(), mizerFMort(), mizerFMortGear(), mizerFeedingLevel(), mizerMort(), mizerPredRate(), mizerRDI(), mizerRates(), mizerResourceMort()