OpEC4photo: Optimization of C4 photosynthesis parameters (von Caemmerer...

In serbinsh/biocro: Simulation of Energycane and Sugarcane

Description

Optimization method for the von Caemmerer C4 photosynthesis model.

Usage

  OpEC4photo(obsDat, iVcmax = 60, iVpmax = 120, iVpr = 80,
    iJmax = 400, co2 = 380, o2 = 210, level = 0.95)

Arguments

obsDat	observed assimilation data, which should be a data frame or matrix. The first column should be observed net assimilation rate (μ mol m^{-2} s^{-1}). The second column should be the observed quantum flux (μ mol m^{-2} s^{-1}). The third column should be observed temperature of the leaf (Celsius). The fourth column should be the observed relative humidity in proportion (e.g. 0.7).
iVcmax	initial value for Vcmax (default = 60).
iVpmax	initial value for Vpmax (default = 120).
iVpr	initial value for Vpr (default = 80).
iJmax	initial value for Jmax (default = 400).
co2	atmospheric CO2 concentration (ppm), default = 380.
o2	atmospheric O2 concentration (mmol/mol), default = 210.
level	level for the confidence intervals.

Value

an object of class OpEC4photo. Notice that these are the new-style S4 classes.

Examples

data(obsNaid)
## These data are from Naidu et al. (2003)
## in the correct format
res <- OpEC4photo(obsNaid)
## Other example using Beale, Bint and Long (1996)
data(obsBea)
resB <- OpEC4photo(obsBea)

serbinsh/biocro documentation built on May 29, 2019, 6:57 p.m.