[R] A naive lsoda question....

[Thomas Petzoldt]

Manojit Roy wrote:
> Hello,
> 
> I am an R newbie, trying to use lsoda to solve standard Lotka-Volterra 
> competition equations. My question is: how do I pass a parameter that 
> varies with time, like say, phix <- 0.7 + runif(tmax) in the example below.

Hello,

the simplest and most pragmatic way to implement such non-autonomous 
systems is to define a global variable, e.g. phix.t and to refer to it 
in the model function via its index (see below) or via approx. If you 
want a more sophisticated solution, don't hesitate to ask me again.

Hope it helps

Thomas P.



lotvol <- function(t,n,p){
    x <- n[1]; y <- n[2]
    rx <- p["rx"]; ry <- p["ry"]
    Kx <- p["Kx"]; Ky <- p["Ky"]

    phix <- phix.t[floor(t+1)]

    phiy <- p["phiy"]

    dx.dt <- rx*x*(1 - x/Kx) - phix*x*y
    dy.dt <- ry*y*(1 - y/Ky) - phiy*x*y
    list(c(dx.dt, dy.dt))
}

# running lsoda
nstart <- c(x=0.5, y=0.5)
parms <- c(rx=1, ry=1, Kx=1, Ky=1, phix=1.2, phiy=0.8)
tmax <- 100
times <- seq(0, tmax)

phix.t <- 0.7 + runif(tmax)

require(odesolve)
out <- as.data.frame(lsoda(nstart, times, lotvol, parms))