Works perfectly. Thank you.
-Hugh Rand
-----Original Message-----
From: Spencer Graves [mailto:spencer.graves at pdf.com]
Sent: Sunday, January 15, 2006 6:41 PM
To: Rand, Hugh
Cc: 'r-help at lists.R-project.org'
Subject: Re: [R] trouble with extraction/interpretation of variance
structure para meters from a model built using gnls and varConstPower
How about this:
> exp(coef(model3$modelStruct$varStruct)["const"])
const
0.6551298
Does that answer the question about not understanding the
connection
between summary(model3) and coef(model3$modelStruct$varStruct)["const"]?
Regarding the question about R not being able to find
'coef.varFunc',
I tried the following:
> methods("coef")
<snip>
coef.varFunc*
[37] coef.varIdent* coef.varPower*
Non-visible functions are asterisked
Since "coef.varFunc" is "asterisked", I tried
'getAnywhere(coef.varFunc)'. I walked through this code line by line,
until I found the following:
> (val <- as.vector(model3$modelStruct$varStruct))
Variance function structure of class varConstPower representing
const power
0.6551298 0.8913665
Answer the questions?
spencer graves
Rand, Hugh wrote:
I have been using gnls with the weights argument (and varConstPower) to specify a variance structure for curve fits. In attempting to extract the parameters for the variance model I am seeing results I don't understand. When I simply display the model (or use "summary" on the model), I get
what
seem like reasonable values for both "power" and "const". When I actually try to extract the values, I get the same number for the "power", but a different (and less sensible) value for "const". The simplest example I can come up with that shows the problem is as follows: #Set up data x = c(0,0,0,1,1,1,2,2,2,3,3,3,4,4,4,5,5,5,6,6,6,7,7,7); y0 = c(.1,.1,.1, .5,.5,.5, 1,1,1, 2,2,2, 4,4,4, 7,7,7, 9,9,9, 10,10,10); yp = c(0,.03,.05, 0,.05,.01, 0,.07,.03, .1,0,.2, .2,.1,0, .3,0,.1, 0,.3,.4, .3,.5,0); y = y0 + 4*yp; data = data.frame(x=x,y=y); #Run model library(nlme) model3 = try(gnls(y ~
SSfpl(x,A,B,xmid,scal),data=data,weights=varConstPower(const=1,power=0,form=
~fitted(.)))); #Examine results model3; #const = .6551298, power
=
.8913665 summary(model3); #const = .6551298, power
=
.8913665 coef(model3$modelStruct$varStruct)["power"]; # power
=
.8913665 coef(model3$modelStruct$varStruct)["const"]; #const = -0.4229219 coef.varFunc(model3$modelStruct$varStruct); #R can't seem to find this function, Splus can Any advice on what I am doing wrong would be appreciated. Hugh Rand Senior Scientist Amgen rand at amgen.com
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