[R] R] nls model singular gradient matrix at initial parameter, > estimates
Prof J C Nash (U30A)
nashjc at uottawa.ca
Thu May 28 15:12:44 CEST 2015
I have a section (6.4.2) about "singular gradient" (actually singular
Jacobian to numerical analysts) in my recent book "Nonlinear parameter
optimization using R tools". nls() is prone to this, though having all
the starting values the same in many functions can be asking for trouble
of this sort, as is any function involving expm(). (If you search on
R-help archives, you'll find where there is discussion of how this can
result in huge timing differences in two similar methods of calculation.
But that is about timing rather than computational failure.)
To avoid some of the "singular gradient" issues, try package nlmrt. Note
that it's nlxb() has a slightly different call in that more arguments
need to be explicitly specified.
JN
On 15-05-27 06:00 AM, r-help-request at r-project.org wrote:
> Message: 34
> Date: Wed, 27 May 2015 01:23:35 +0000
> From: oussama belmejdoub <oussa.belm at hotmail.com>
> To: "r-help at r-project.org" <r-help at r-project.org>
> Subject: [R] nls model singular gradient matrix at initial parameter
> estimates
> Message-ID: <DUB109-W3681A8069B5CE24D6E75A79CCB0 at phx.gbl>
> Content-Type: text/plain; charset="iso-8859-1"
>
> Greetings,
> I'm trying to use the nls function in my statistics project but I'm really finding lot of difficulties.
> I have a function called apinene_modele_prediction that calculates the estimations:
> library(expm); #exp of a matrixapinene_modele_prediction <- function(t,theta) { x0=c(100,0,0,0,0) A=matrix(c(-(theta[1]+theta[2]),theta[1],theta[2],0,0,0,0,0,0,0,0,0,-(theta[3]+theta[4]),theta[3],theta[4],0,0,0,0,0,0,0,theta[5],0,-theta[5]),5,5) X=x0 for (i in t[2:length(t)]){ X=c(X,x0%*%expm(A*i)) }return(X)}
>
> My "t" vector is given by:
> t=seq(0,100,by=2)
> And the real observations "y" ara given to us in a txt file called "data.txt" that I have joined to this message.
> So when I try to fit the "theta" in my model starting with: theta=c(0.2,0.2,0.2,0.2,0.2)
> And doing:
> theta_appr <-nls(y~apinene_modele_prediction(t,theta),start=list(theta=c(0.2,0.2,0.2,0.2,0.2)))
> I always got the ERROR : singular gradient matrix at initial parameter estimates
> And, when I try: nls(y~apinene_modele_prediction(t,c(theta,theta,theta,theta,theta)),start=list(theta=0.2))
> I got the result: Nonlinear regression model model: y ~ apinene_modele_prediction(t, c(theta, theta, theta, theta, theta)) data: parent.frame() theta0.04403 residual sum-of-squares: 219002
> But I need to have the elements of the theta to be different and not equal.
> Thanks in advance for your help.
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