[R] Dealing with NAs in lm or gmm

Tue Oct 21 15:12:16 CEST 2014

I suggest you remove the NAs in your dataset if it does not affect your
results.

That can be done by using na.omit command. Thanks.

On Tue, Oct 21, 2014 at 12:51 PM, ONKELINX, Thierry <
Thierry.ONKELINX at inbo.be> wrote:

> It looks like gmm is not handling na.exclude correctly. You should contact
> the package maintainer.
>
> 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.Onkelinx at inbo.be<mailto:Thierry.Onkelinx at inbo.be>
> www.inbo.be<http://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
>
> Van: jpm miao [mailto:miaojpm at gmail.com]
> Verzonden: dinsdag 21 oktober 2014 11:35
> Aan: ONKELINX, Thierry
> CC: r-help
> Onderwerp: Re: [R] Dealing with NAs in lm or gmm
>
> I tries "na.action = na.exclude" but it returns a fitted vector with NAs
> removed.
> Is there any way to return the fitted vector with NAs (In my case, 94*1
> matrix)?
>
> > gmm8<-gmm(y~RDR1+xx, xiv, na.action = na.exclude)
> Warning message:
> In getDat(object$g, object$x) :
>   There are missing values. Associated observations have been removed
> > nrow(fitted(gmm8))
> [1] 89
> > nrow(xx)
> NULL
> > nrow(as.matrix(xx))
> [1] 94
> > nrow(RDR1)
> [1] 94
> > nrow(y)
> [1] 94
>
> 2014-10-21 17:27 GMT+08:00 ONKELINX, Thierry <Thierry.ONKELINX at inbo.be
> <mailto:Thierry.ONKELINX at inbo.be>>:
> You want na.action = na.exclude. Or remove rows with NA values from your
> dataset. Which is IMHO the safest way to build a model.
>
> 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<tel:%2B%2032%202%20525%2002%2051>
> + 32 54 43 61 85<tel:%2B%2032%2054%2043%2061%2085>
> Thierry.Onkelinx at inbo.be<mailto:Thierry.Onkelinx at inbo.be>
> www.inbo.be<http://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-bounces at r-project.org<mailto:r-help-bounces at r-project.org>
> [mailto:r-help-bounces at r-project.org<mailto:r-help-bounces at r-project.org>]
> Namens jpm miao
> Verzonden: dinsdag 21 oktober 2014 10:29
> Aan: r-help
> Onderwerp: [R] Dealing with NAs in lm or gmm
>
> Hi,
>
>    My question is about NAs in the function "gmm", but I believe that the
> same issues occur in the case of "lm".
>
>    I try to estimate a model by "gmm" function (GMM, generalized method of
> moments). Each of the  variables has 94 rows, but the resulting fitted
> model has only 89 rows. Then the function removes the rows with NAs.  I
> want to add a 94*1 vector, ONI, to the resulting fitted values; I want to
> find the fitted value with NAs kept. How can I do it? na.action?
>
>    Code:
>
>    > gmm8<-gmm(y~RDR1+xx, xiv)
> Warning message:
> In getDat(object$g, object$x) :
>   There are missing values. Associated observations have been removed
>
> > ONI.gmm8<-fitted(gmm8)+0.85*ONI
> Error in NextMethod(.Generic) :
>   dims [product 89] do not match the length of object [94] In addition:
> Warning message:
> In `+.default`(fitted(gmm8), 0.85 * ONI) :
>   longer object length is not a multiple of shorter object length
>
> Help on na.action:
> na.action
> a function which indicates what should happen when the data contain NAs.
> The default is set by the na.action setting of options, and is na.fail if
> that is unset. The ‘factory-fresh’ default is na.omit. Another possible
> value is NULL, no action. Value na.exclude can be useful.
>
> Thanks!
>
> Miao
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> Dit bericht en eventuele bijlagen geven enkel de visie van de schrijver
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> 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.
>
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>
> ______________________________________________
> R-help at 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.
>

-- 
Frederic Ntirenganya
Maseno University,
Kenya.
Mobile:(+254)718492836
Email: fredo at aims.ac.za
https://sites.google.com/a/aims.ac.za/fredo/

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