Express the formula in terms of simple operations like this: # add 0/1 columns ref.1, ref.2, ..., ref.6 dproot2 <- do.call(data.frame, transform(dproot, ref = outer(dproot$ref, seq(6), "==") + 0))
# now express the formula in terms of the new columns library(nlmrt) fitdp1<-nlxb(den ~ (Rm1 * ref.1 + Rm2 * ref.2 + Rm3 * ref.3 + Rm4 * ref.4 + Rm5 * ref.5 + Rm6 * ref.6)/(1+(depth/d50)^c), data = dproot2, start = c(Rm1=1.01, Rm2=1.01, Rm3=1.01, Rm4=6.65, Rm5=1.01, Rm6=1, d50=20, c=-1), masked = "Rm6") where we used this input: Lines <- " depth den ref 1 20 0.5730000 1 2 40 0.7800000 1 3 60 0.9470000 1 4 80 0.9900000 1 5 100 1.0000000 1 6 10 0.6000000 2 7 20 0.8200000 2 8 30 0.9300000 2 9 40 1.0000000 2 10 20 0.4800000 3 11 40 0.7340000 3 12 60 0.9610000 3 13 80 0.9980000 3 14 100 1.0000000 3 15 20 3.2083491 4 16 40 4.9683383 4 17 60 6.2381133 4 18 80 6.5322348 4 19 100 6.5780660 4 20 120 6.6032064 4 21 20 0.6140000 5 22 40 0.8270000 5 23 60 0.9500000 5 24 80 0.9950000 5 25 100 1.0000000 5 26 20 0.4345774 6 27 40 0.6654726 6 28 60 0.8480684 6 29 80 0.9268951 6 30 100 0.9723207 6 31 120 0.9939966 6 32 140 0.9992400 6" dproot <- read.table(text = Lines, header = TRUE) On Mon, Sep 21, 2015 at 12:22 PM, Jianling Fan <fanjianl...@gmail.com> wrote: > Thanks Prof. Nash, > > Sorry for late reply. I am learning and trying to use your nlmrt > package since I got your email. It works good to mask a parameter in > regression but seems does work for my equation. I think the problem is > that the parameter I want to mask is a group-specific parameter and I > have a "[]" syntax in my equation. However, I don't have your 2014 > book on hand and couldn't find it in our library. So I am wondering if > nlxb works for group data? > Thanks a lot! > > following is my code and I got a error form it. > > > fitdp1<-nlxb(den~Rm[ref]/(1+(depth/d50)^c),data=dproot, > + start =c(Rm1=1.01, Rm2=1.01, Rm3=1.01, Rm4=6.65, > Rm5=1.01, Rm6=1, d50=20, c=-1), > + masked=c("Rm6")) > > Error in deriv.default(parse(text = resexp), names(start)) : > Function '`[`' is not in the derivatives table > > > Best regards, > > Jianling > > > On 20 September 2015 at 12:56, ProfJCNash <profjcn...@gmail.com> wrote: > > I posted a suggestion to use nlmrt package (function nlxb to be precise), > > which has masked (fixed) parameters. Examples in my 2014 book on > Nonlinear > > parameter optimization with R tools. However, I'm travelling just now, or > > would consider giving this a try. > > > > JN > > > > > > On 15-09-20 01:19 PM, Jianling Fan wrote: > >> > >> no, I am doing a regression with 6 group data with 2 shared parameters > >> and 1 different parameter for each group data. the parameter I want to > >> coerce is for one group. I don't know how to do it. Any suggestion? > >> > >> Thanks! > >> > >> On 19 September 2015 at 13:33, Jeff Newmiller <jdnew...@dcn.davis.ca.us > > > >> wrote: > >>> > >>> Why not rewrite the function so that value is not a parameter? > >>> > >>> > --------------------------------------------------------------------------- > >>> Jeff Newmiller The ..... ..... Go > >>> Live... > >>> DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. Live > >>> Go... > >>> Live: OO#.. Dead: OO#.. > Playing > >>> Research Engineer (Solar/Batteries O.O#. #.O#. with > >>> /Software/Embedded Controllers) .OO#. .OO#. > >>> rocks...1k > >>> > >>> > --------------------------------------------------------------------------- > >>> Sent from my phone. Please excuse my brevity. > >>> > >>> On September 18, 2015 9:54:54 PM PDT, Jianling Fan > >>> <fanjianl...@gmail.com> wrote: > >>>> > >>>> Hello, everyone, > >>>> > >>>> I am using a nls regression with 6 groups data. I am trying to coerce > >>>> a parameter to 1 by using a upper and lower statement. but I always > >>>> get an error like below: > >>>> > >>>> Error in ifelse(internalPars < upper, 1, -1) : > >>>> (list) object cannot be coerced to type 'double' > >>>> > >>>> does anyone know how to fix it? > >>>> > >>>> thanks in advance! > >>>> > >>>> My code is below: > >>>> > >>>> > >>>> > >>>>> dproot > >>>> > >>>> depth den ref > >>>> 1 20 0.5730000 1 > >>>> 2 40 0.7800000 1 > >>>> 3 60 0.9470000 1 > >>>> 4 80 0.9900000 1 > >>>> 5 100 1.0000000 1 > >>>> 6 10 0.6000000 2 > >>>> 7 20 0.8200000 2 > >>>> 8 30 0.9300000 2 > >>>> 9 40 1.0000000 2 > >>>> 10 20 0.4800000 3 > >>>> 11 40 0.7340000 3 > >>>> 12 60 0.9610000 3 > >>>> 13 80 0.9980000 3 > >>>> 14 100 1.0000000 3 > >>>> 15 20 3.2083491 4 > >>>> 16 40 4.9683383 4 > >>>> 17 60 6.2381133 4 > >>>> 18 80 6.5322348 4 > >>>> 19 100 6.5780660 4 > >>>> 20 120 6.6032064 4 > >>>> 21 20 0.6140000 5 > >>>> 22 40 0.8270000 5 > >>>> 23 60 0.9500000 5 > >>>> 24 80 0.9950000 5 > >>>> 25 100 1.0000000 5 > >>>> 26 20 0.4345774 6 > >>>> 27 40 0.6654726 6 > >>>> 28 60 0.8480684 6 > >>>> 29 80 0.9268951 6 > >>>> 30 100 0.9723207 6 > >>>> 31 120 0.9939966 6 > >>>> 32 140 0.9992400 6 > >>>> > >>>>> fitdp<-nls(den~Rm[ref]/(1+(depth/d50)^c),data=dproot, > >>>> > >>>> + start = list(Rm=c(1.01, 1.01, 1.01, 6.65,1.01,1), d50=20, c=-1)) > >>>>> > >>>>> summary(fitdp) > >>>> > >>>> > >>>> Formula: den ~ Rm[ref]/(1 + (depth/d50)^c) > >>>> > >>>> Parameters: > >>>> Estimate Std. Error t value Pr(>|t|) > >>>> Rm1 1.12560 0.07156 15.73 3.84e-14 *** > >>>> Rm2 1.57643 0.11722 13.45 1.14e-12 *** > >>>> Rm3 1.10697 0.07130 15.53 5.11e-14 *** > >>>> Rm4 7.23925 0.20788 34.83 < 2e-16 *** > >>>> Rm5 1.14516 0.07184 15.94 2.87e-14 *** > >>>> Rm6 1.03658 0.05664 18.30 1.33e-15 *** > >>>> d50 22.69426 1.03855 21.85 < 2e-16 *** > >>>> c -1.59796 0.15589 -10.25 3.02e-10 *** > >>>> --- > >>>> Signif. codes: 0 ?**?0.001 ?*?0.01 ??0.05 ??0.1 ??1 > >>>> > >>>> Residual standard error: 0.1094 on 24 degrees of freedom > >>>> > >>>> Number of iterations to convergence: 8 > >>>> Achieved convergence tolerance: 9.374e-06 > >>>> > >>>>> fitdp1<-nls(den~Rm[ref]/(1+(depth/d50)^c),data=dproot, > >>>> > >>>> algorithm="port", > >>>> + start = list(Rm=c(1.01, 1.01, 1.01, 6.65, 1.01, 1), d50=20, c=-1), > >>>> + lower = list(Rm=c(1.01, 1.01, 1.01, 6.65, 1.01, 1), d50=20, c=-1), > >>>> + upper = list(Rm=c(2.1, 2.2, 2.12, 12.5, 2.3, 1), d50=50, c=1)) > >>>> > >>>> Error in ifelse(internalPars < upper, 1, -1) : > >>>> (list) object cannot be coerced to type 'double' > >>>> > >>>> ______________________________________________ > >>>> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > >>>> https://stat.ethz.ch/mailman/listinfo/r-help > >>>> PLEASE do read the posting guide > >>>> http://www.R-project.org/posting-guide.html > >>>> and provide commented, minimal, self-contained, reproducible code. > >>> > >>> > >> > >> > >> > > > > ______________________________________________ > > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > > https://stat.ethz.ch/mailman/listinfo/r-help > > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > > and provide commented, minimal, self-contained, reproducible code. > > > > -- > Jianling Fan > 樊建凌 > > ______________________________________________ > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > -- Statistics & Software Consulting GKX Group, GKX Associates Inc. tel: 1-877-GKX-GROUP email: ggrothendieck at gmail.com [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.