Description Usage Arguments Value Note Examples
Compute the rate of change of the five ecosystem state variables given initial conditions and parameters
1 2 3 4 5 6 | ecoStep(X, pars = c(qE = 0.01), fA = 2, cJA = 0.1, cJF = 0.5,
cFA = 0.3, vuln = 80, hide = 80, surv = 0.6, Fo = 200, DF = 0.09,
Zmix = 4, nZ = 10, rP = 3, Load = 0.6, mP = 0.1, Ho = 4,
DH = 0.5, cHF = 0.1, alf = 0.3, cPH = 0.25, I0 = 300,
k_sat = 0.012, k_inh = 0.004, DOC = 5, eps0 = 0.0213 + 0.0514 * DOC,
epsP = 0.0177)
|
X |
vector of length 3 with names P0 (initial phytoplankton), H0 (initial herbivore [zooplankton]), A0 (adult piscivorous fish), F0 (planktivorous fish), and J0 (juvenile piscivores). Indicates starting value of state variables |
pars |
a length 1 vector with name qE, indicating harvesting rate of adults |
fA |
Fecundity of adult piscivore (2 in OLD) |
cJA |
Density dependent mortality rate of juveniles |
cJF |
Consumption of juveniles by planktivores |
cFA |
Consumption of planktivores by adult piscivores |
vuln |
Vulnerability coefficient (this is "v" in eco lett table/ equations) |
hide |
Hiding coefficient (this is "h" in eco lett table/ equations) |
surv |
Overwinter survivorship of adults |
Fo |
Refuge density of planktivores |
DF |
Diffusion parameter for planktivores |
Zmix |
depth of mixed layer in meters |
nZ |
number of steps for vertical integration |
rP |
phytoplankton growth parameter |
Load |
daily phosphorus load |
mP |
phytoplankton daily mortality |
Ho |
refuge biomass |
DH |
diffusion parameter for zooplankton (herbivore) |
cHF |
consumption rate by planktivore (of zooplankton) |
alf |
conversion efficiency of consumed phytoplankton to zooplankton |
cPH |
consumption rate of phytoplankton by zooplankton |
I0 |
surface irradiance, microEinsteins m-1 s-1 |
k_sat, k_inh |
photosynthesis-irradiance parameters |
k_inh |
per microEinsteins |
DOC, eps0, epsP |
Light extinction parameters from Carpenter et al. L&O 1998; DOC is dissolved organic carbon; eps are in units per m |
eps0, epsP |
extinction coefficient, per m |
I0 |
surface irradiance |
k_sat |
per microEinsteins m-1 s-1 |
DOC |
dissolved organic carbon, g m-3 |
named vector of length 5, with names corresponding to juvenile bass (J0), adult bass (A0), and sunfish (F0) abundances.
F
are referred to as planktivorous fish, but they do feed on the juvenile piscivores (J
).
1 |
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