Sets the rate at which energy is used for metabolism and activity
setMetab(params, metab = NULL)
| params | MizerParams |
|---|---|
| metab | Optional. An array (species x size) holding the metabolic rate for each species at size. If not supplied, a default is set as described in the section "Setting metabolic rate". |
| p | Scaling exponent of the standard metabolic rate. |
MizerParams
The metabolic rate is subtracted from the energy income rate to calculate
the rate at which energy is available for growth and reproduction, see
getEReproAndGrowth. It is measured in grams/year.
If the metab argument is not supplied, then for each species the
metabolic rate \(k(w)\) for an individual of size \(w\) is set to
$$k(w) = ks w^p + k w,$$
where \(ks w^p\) represents the rate of standard metabolism and \(k w\)
is the rate at which energy is expended on activity and movement. The values
of \(ks\), \(p\) and \(k\) are taken from the ks, p and
k columns in the species parameter dataframe. If any of these
parameters are not supplied, the defaults are \(k = 0\), \(p = n\) and
$$ks = f_c h \alpha w_{mat}^{n-p},$$
where \(f_c\) is the critical feeding level taken from the fc column
in the species parameter data frame. If the critical feeding level is not
specified, a default of \(f_c = 0.2\) is used.
Other functions for setting parameters:
setBMort(),
setFishing(),
setInitial(),
setIntakeMax(),
setInteraction(),
setParams(),
setPlankton(),
setPredKernel(),
setReproduction(),
setSearchVolume()
if (FALSE) { params <- NS_params # Change activity coefficient for species 3 params@species_params$k[3] <- 8 params <- setMetab(params) }