f.MinusLogL: Title

In TESTgroup-BNL/LeafGasExchange: A package containing functions for fitting photosynthetic response curves, simulat leaf and canopy photosynthesis

Title

Description

Title

Usage

f.MinusLogL(
  data,
  sigma,
  R = 0.75,
  O2 = 0.75,
  TRef = 0.75,
  Patm = 0.75,
  JmaxRef = 0.75,
  JmaxHa = 0.75,
  JmaxHd = 0.75,
  JmaxS = 0.75,
  VcmaxRef = 0.75,
  VcmaxHa = 0.75,
  VcmaxHd = 0.75,
  VcmaxS = 0.75,
  TpRef = 0.75,
  TpHa = 0.75,
  TpHd = 0.75,
  TpS = 0.75,
  thetacj = 0.75,
  thetaip = 0.75,
  RdRef = 0.75,
  RdHa = 0.75,
  RdHd = 0.75,
  RdS = 0.75,
  KcRef = 0.75,
  KcHa = 0.75,
  KcQ10 = 0.75,
  KoRef = 0.75,
  KoHa = 0.75,
  GstarRef = 0.75,
  GstarHa = 0.75,
  abso = 0.75,
  aQY = 0.75,
  Theta = 0.75,
  model.gs = NA,
  g0 = 0.75,
  g1 = 0.75,
  power = 0.75
)

Arguments

sigma	Sigma value
R	Ideal gas constant.
O2	O2 concentration in ppm.
TRef	Reference temperature for Kc, Ko, Rd,GammaStar Vcmax, Jmax in Kelvin.
Patm	Atmospheric pressure in kPa.
JmaxRef	Maximum electron transport rate in micromol.m-2.s-1.
JmaxHa	Energy of activation for Jmax in J.mol-1.
JmaxHd	Energy of desactivation for Jmax in J.mol-1.
JmaxS	Entropy term for Jmax in J.mol-1.K-1.
VcmaxRef	Maximum rate of Rubisco for carboxylation micromol.m-2.s-1.
VcmaxHa	Energy of activation for Vcmax in J.mol-1.
VcmaxHd	Energy of desactivation for Vcmax in J.mol-1.
VcmaxS	Entropy term for Vcmax in J.mol-1.K-1.
TpRef	Triose phosphate utilization rate in micromol.m-2.s-1.
TpHa	Activation energy for Tp in J.mol-1.
TpHd	Energy of deactivation for Tp in J.mol-1.
TpS	Entropy term for Tp in J.mol-1.K-1.
thetacj	Collatz smoothing factor used to introduce a gradual transition from Ac to Aj (close to 0.999)
thetaip	Collatz smoothing factor used to introduce a gradual transition from Aj to Ap (close to 0.999)
RdRef	Respiration value at the reference temperature in micromol.m-2.s-1.
RdHa	Energie of activation for Rd in J.mol-1.
KcRef	Michaelis-Menten constant of Rubisco for CO2 at the reference temperature in micromol.mol-1.
KcHa	Energy of activation for Kc in J.mol-1.
KoRef	Michaelis-Menten constant of Rubisco for CO2 at the reference temperature in milimol.mol-1.
KoHa	Energy of activation for Ko in J.mol-1.
GstarRef	CO2 compensation point in absence of respiration in micromol.mol-1.
GstarHa	Enthalpie of activation for Gstar in J.mol-1.
abso	Absorptance of the leaf in the photosynthetic active radiation wavelenghts.
aQY	Apparent quantum yield.
Theta	Theta is the empirical curvature factor for the response of J to PFD. It takes its values between 0 and 1.
model.gs	Type of conductance model (USO, USO_simpl,BWB or Nonlinear). See f.gs documentation for more information.
g0	Constant of the conductance model, representing the conductance when A is 0, in mol.m-2.s-1, usually around 0.01.
g1	Slope parameter, between 1.14 and 3.58 KPa^0.5 (Wu et al., 2019).
power	Power of VPDl in USO model. By default power=0.5 as in Medlyn article.

TESTgroup-BNL/LeafGasExchange documentation built on May 17, 2024, 8:11 p.m.