Implementation of a three pool model with parallel structure

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Description

The function creates a model for three independent (parallel) pools. It is a wrapper for the more general function ParallelModel that can handle an arbitrary number of pools.

Usage

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ThreepParallelModel(t,
 ks, C0, In, gam1, gam2, xi = 1, solver = deSolve.lsoda.wrapper, 
    pass = FALSE)

Arguments

t

A vector containing the points in time where the solution is sought.

ks

A vector of length 3 containing the decomposition rates for the 3 pools.

C0

A vector of length 3 containing the initial amount of carbon for the 3 pools.

In

A scalar or a data.frame object specifying the amount of litter inputs by time.

gam1

A scalar representing the partitioning coefficient, i.e. the proportion from the total amount of inputs that goes to pool 1.

gam2

A scalar representing the partitioning coefficient, i.e. the proportion from the total amount of inputs that goes to pool 2.

xi

A scalar or a data.frame specifying the external (environmental and/or edaphic) effects on decomposition rates.

solver

A function that solves the system of ODEs. This can be euler or ode or any other user provided function with the same interface.

pass

Value

A Model Object that can be further queried

Author(s)

Carlos A. Sierra <csierra@bgc-jena.mpg.de>, Markus Mueller <mamueller@bgc-jena.mpg.de>

References

Sierra, C.A., M. Mueller, S.E. Trumbore. 2012. Models of soil organic matter decomposition: the SoilR package version 1.0. Geoscientific Model Development 5, 1045-1060.

See Also

TwopParallelModel and ParallelModel

Examples

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t_start=0 
t_end=10 
tn=50
timestep=(t_end-t_start)/tn 
t=seq(t_start,t_end,timestep) 

Ex=ThreepParallelModel(t,ks=c(k1=0.5,k2=0.2,k3=0.1),
                       C0=c(c10=100, c20=150,c30=50),In=20,gam1=0.7,gam2=0.1,xi=0.5)
Ct=getC(Ex)

plot(t,rowSums(Ct),type="l",lwd=2,
     ylab="Carbon stocks (arbitrary units)",xlab="Time",ylim=c(0,sum(Ct[1,]))) 
lines(t,Ct[,1],col=2)
lines(t,Ct[,2],col=4)
lines(t,Ct[,3],col=3)
legend("topright",c("Total C","C in pool 1", "C in pool 2","C in pool 3"),
       lty=c(1,1,1,1),col=c(1,2,4,3),lwd=c(2,1,1,1),bty="n")

Rt=getReleaseFlux(Ex)
plot(t,rowSums(Rt),type="l",ylab="Carbon released (arbitrary units)",
     xlab="Time",lwd=2,ylim=c(0,sum(Rt[1,]))) 
lines(t,Rt[,1],col=2)
lines(t,Rt[,2],col=4)
lines(t,Rt[,3],col=3)
legend("topright",c("Total C release","C release from pool 1",
       "C release from pool 2","C release from pool 3"),
        lty=c(1,1,1,1),col=c(1,2,4,3),lwd=c(2,1,1,1),bty="n")

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