Re: [R] problem with get() inside of lme()
You can achieve that with a combination of as.formula and paste. library(nlme) data(petrol, package = "MASS") lme(as.formula(paste(Y.VAR, "~EP")), random= ~1|No, data=petrol) Best regards, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance Kliniekstraat 25 1070 Anderlecht Belgium + 32 2 525 02 51 + 32 54 43 61 85 thierry.onkel...@inbo.be www.inbo.be To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John Tukey -Oorspronkelijk bericht- Van: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] Namens chuck.01 Verzonden: zaterdag 12 mei 2012 23:28 Aan: r-help@r-project.org Onderwerp: Re: [R] problem with get() inside of lme() Here is an example: library(nlme) library(lme4) library(MASS) data(petrol) # a variable for one of the columns in petrol Y.VAR <- "Y" # This works: lmer(get(Y.VAR)~EP +(1|No), data=petrol) # This doesn't: lme(get(Y.VAR)~EP, random= ~1|No, data=petrol) # but this does: lme(Y~EP, random= ~1|No, data=petrol) I'd really like to use the variable... again, this is inside a function. Any idea how to solve this. Thanks for your time and expertise, Chuck chuck.01 wrote > > please note that I edited the original message to say: > >> length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) > [1] TRUE > > > > > > chuck.01 wrote >> >> Hi, >> The following lines of code are inside of a function, where "TRAIT1" is >> a function variable calling a column-name inside of the data.frame >> "new3". >> >> This works just fine: >> >> m2 <- lmer(get(TRAIT1) ~ perm.score + (1|site), data=new3) >> >> but this will not work: >> >> m3 <- lme(get(TRAIT1) ~ perm.score , random= ~1|site, data=new3) >> >> I get the following error: >> >> Error in model.frame.default(formula = ~TRAIT1 + perm.score + site, data >> = list( : >> variable lengths differ (found for 'perm.score') >> >> it seems to be putting TRAIT1 on the left side of the equation, and if I >> am wrong about that, the different lengths from the error is still not >> true: >> >>> length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) >> [1] TRUE >> >> Any ideas on either what is going on, or how I can fix this? >> >> ** I'm not including example data, or function because I am hoping it is >> not needed ** >> Please let me know if I am wrong. >> > -- View this message in context: http://r.789695.n4.nabble.com/problem-with-get-inside-of-lme-tp4629360p4629588.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list 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. * * * * * * * * * * * * * D I S C L A I M E R * * * * * * * * * * * * * Dit bericht en eventuele bijlagen geven enkel de visie van de schrijver weer en binden het INBO onder geen enkel beding, zolang dit bericht niet bevestigd is door een geldig ondertekend document. The views expressed in this message and any annex are purely those of the writer and may not be regarded as stating an official position of INBO, as long as the message is not confirmed by a duly signed document. __ R-help@r-project.org mailing list 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.
Re: [R] problem with get() inside of lme()
Here is an example: library(nlme) library(lme4) library(MASS) data(petrol) # a variable for one of the columns in petrol Y.VAR <- "Y" # This works: lmer(get(Y.VAR)~EP +(1|No), data=petrol) # This doesn't: lme(get(Y.VAR)~EP, random= ~1|No, data=petrol) # but this does: lme(Y~EP, random= ~1|No, data=petrol) I'd really like to use the variable... again, this is inside a function. Any idea how to solve this. Thanks for your time and expertise, Chuck chuck.01 wrote > > please note that I edited the original message to say: > >> length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) > [1] TRUE > > > > > > chuck.01 wrote >> >> Hi, >> The following lines of code are inside of a function, where "TRAIT1" is >> a function variable calling a column-name inside of the data.frame >> "new3". >> >> This works just fine: >> >> m2 <- lmer(get(TRAIT1) ~ perm.score + (1|site), data=new3) >> >> but this will not work: >> >> m3 <- lme(get(TRAIT1) ~ perm.score , random= ~1|site, data=new3) >> >> I get the following error: >> >> Error in model.frame.default(formula = ~TRAIT1 + perm.score + site, data >> = list( : >> variable lengths differ (found for 'perm.score') >> >> it seems to be putting TRAIT1 on the left side of the equation, and if I >> am wrong about that, the different lengths from the error is still not >> true: >> >>> length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) >> [1] TRUE >> >> Any ideas on either what is going on, or how I can fix this? >> >> ** I'm not including example data, or function because I am hoping it is >> not needed ** >> Please let me know if I am wrong. >> > -- View this message in context: http://r.789695.n4.nabble.com/problem-with-get-inside-of-lme-tp4629360p4629588.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list 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.
Re: [R] problem with get() inside of lme()
please note that I edited the original message to say: > length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) [1] TRUE chuck.01 wrote > > Hi, > The following lines of code are inside of a function, where "TRAIT1" is > a function variable calling a column-name inside of the data.frame "new3". > > This works just fine: > > m2 <- lmer(get(TRAIT1) ~ perm.score + (1|site), data=new3) > > but this will not work: > > m3 <- lme(get(TRAIT1) ~ perm.score , random= ~1|site, data=new3) > > I get the following error: > > Error in model.frame.default(formula = ~TRAIT1 + perm.score + site, data = > list( : > variable lengths differ (found for 'perm.score') > > it seems to be putting TRAIT1 on the left side of the equation, and if I > am wrong about that, the different lengths from the error is still not > true: > >> length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) > [1] TRUE > > Any ideas on either what is going on, or how I can fix this? > > ** I'm not including example data, or function because I am hoping it is > not needed ** > Please let me know if I am wrong. > -- View this message in context: http://r.789695.n4.nabble.com/problem-with-get-inside-of-lme-tp4629360p4629417.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list 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] problem with get() inside of lme()
Hi, In the following lines of code are inside of a function, where "TRAIT1" is a function variable calling a column-name inside of the data.frame "new3". This works just fine: m2 <- lmer(get(TRAIT1) ~ perm.score + (1|site), data=new3) but this will not work, m3 <- lme(get(TRAIT1) ~ perm.score , random= ~1|site, data=new3) I get the following error: Error in model.frame.default(formula = ~TRAIT1 + perm.score + site, data = list( : variable lengths differ (found for 'perm.score') it seems to be putting TRAIT1 on the left side of the equation, and if I am wong about that, this is still not true: length(with(new3, perm.score))==length(with(new3, get(TRAIT1))) Any ideas on either what is going on, or how I can fix this? ** I'm not including example data, or function because I am hoping it is not needed ** Please let me know if I am wrong. -- View this message in context: http://r.789695.n4.nabble.com/problem-with-get-inside-of-lme-tp4629360.html Sent from the R help mailing list archive at Nabble.com. __ R-help@r-project.org mailing list 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.
