Grow macroalgae
grow_macroalgae.RdInitiate and grow macroalgae.
Usage
grow_macroalgae(
t = 1:30,
temperature,
salinity,
light,
kW,
velocity,
nitrate,
ammonium,
ni_uptake = NA,
am_uptake = NA,
site_params,
spec_params,
initials,
sparse_output = T,
other_constants = c(s = 0.0045, gam = 1.13, a2 = 0.2^2, Cb = 0.0025)
)Arguments
- temperature
a vector of daily temperatures (\(^{\circ}\)C)
- salinity
a vector of daily salt concentrations (g L\(^{-1}\))
- light
a vector of surface light (umol m\(^{-2}\) s\(^{-1}\))
- kW
a vector of light attenuation coefficients for open water (m\(^{-1}\))
- velocity
a vector of water velocities (m s\(^{-1}\))
- nitrate
a vector of nitrate concentrations (mg m\(^{-3}\))
- ammonium
a vector of ammonium concentrations (mg m\(^{-3}\))
- ni_uptake
shape for nitrate uptake, either "MM" for Michaelis-Menton saturation kinetics or "linear" for linear uptake
- am_uptake
shape for ammonium uptake, either "MM" for Michaelis-Menton saturation kinetics or "linear" for linear uptake
- site_params
a named vector of species-specific parameters - see details
- spec_params
a named vector of site-specific parameters - see details
- initials
a named vector of the macroalgae starting conditions
- sparse_output
logical, whether to include input vectors and other non-essential information in final dataframe (default = TRUE)
- other_constants
a named vector of other constants for intermediate equations (see
u_c())- start
integer, start of the growth period (day of at-sea deployment). Defaults to 1.
- grow_days
integer, number of day in growing period - if missing will take the length of the temperature vector
Details
Example csv with all the spec_params & site_params required?
Note that the final growth dataframe is inclusive of the start and end date, so the environmental vectors must be the same