great, Thanks a lot! On 22 September 2015 at 12:07, Gabor Grothendieck <ggrothendi...@gmail.com> wrote: > You may have to do without masking and switch back to nls. dproot2 and fo > are from prior post. > > # to mask Rm6 omit it from start and set it explicitly > st <- c(Rm1=1.01, Rm2=1.01, Rm3=1.01, Rm4=6.65, Rm5=1.01, d50=20, c=-1) > Rm6 <- 1 > > fm.nls <- nls(fo, dproot2, start = st) > > AIC(fm.nls) > summary(fm.nls) > > > On Tue, Sep 22, 2015 at 12:46 PM, Jianling Fan <fanjianl...@gmail.com> > wrote: >> >> Hello Prof. Nash, >> >> My regression works good now. But I found another problem when I using >> nlxb. In the output, the SE, t-stat, and p-value are not available. >> Furthermore, I can't extract AIC from the output. The output looks >> like below: >> >> Do you have any suggestion for this? >> >> Thanks a lot! >> >> Regards, >> >> nlmrt class object: x >> residual sumsquares = 0.29371 on 33 observations >> after 9 Jacobian and 10 function evaluations >> name coeff SE tstat pval >> gradient JSingval >> Rm1 1.1162 NA NA NA >> -3.059e-13 2.745 >> Rm2 1.56072 NA NA NA >> 1.417e-13 1.76 >> Rm3 1.09775 NA NA NA >> -3.179e-13 1.748 >> Rm4 7.18377 NA NA NA >> -2.941e-12 1.748 >> Rm5 1.13562 NA NA NA >> -3.305e-13 1.076 >> Rm6 1 M NA NA NA >> 0 0.603 >> d50 22.4803 NA NA NA >> 4.975e-13 0.117 >> c -1.64075 NA NA NA >> 4.12e-12 1.908e-17 >> >> >> >> On 21 September 2015 at 13:38, ProfJCNash <profjcn...@gmail.com> wrote: >> > I've not used it for group data, and suspect that the code to generate >> > derivatives cannot cope with the bracket syntax. If you can rewrite the >> > equation without the brackets, you could get the derivatives and solve >> > that >> > way. This will probably mean having a "translation" routine to glue >> > things >> > together. >> > >> > JN >> > >> > >> > On 15-09-21 12:22 PM, Jianling Fan 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
-- 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.