Indicator Species analysis; trouble with multipatt

Hi Ansley
It looks good to me but I did not run the analysis as I am too lazy to install "indicspecies".  The inclusion of the raw data is a great help.

John Kane
Kingston ON Canada

-----Original Message-----
From: daily.puja at gmail.com
Sent: Tue, 19 Apr 2016 08:16:54 -0400
To: jrkrideau at inbox.com
Subject: Re: [R] Indicator Species analysis; trouble with multipatt

Thanks for the replies.

I have fixed the problem.? I only need to reorganized my data.? Now my question is about asking questions correctly.? I hope I've got it.? Please find the script attached here.

R Version 3.2.2

I am looking for indicator species with Indicspecies package.? After running the function multipatt, I get the following error:

Error in is.factor(x) : object 'groups1' not found

**Is this?reproducibility satisfactory?? I fixed the problem by reorganizing my csv file.? I was trying to be?efficient?when making my groups?and that was causing the trouble.

Thanks.

Hi Ansely,
 As Jim points out we really need some sample data to go with the code.

 Have a look at ?dput which is the best way to supply sample data here or have a look at http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example [http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example] and/or http://adv-r.had.co.nz/Reproducibility.html [http://adv-r.had.co.nz/Reproducibility.html] for some general suggestions on asking questions here---including discussions of using dput()

 John Kane
 Kingston ON Canada

 > -----Original Message-----
 > From: daily.puja at gmail.com
 > Sent: Mon, 18 Apr 2016 16:33:54 -0400
 > To: r-help at r-project.org
 > Subject: [R] Indicator Species analysis; trouble with multipatt
 >
 > Hello,
 >
 > *Error in tx? %*% comb : non-conformable arguments*
 >
 > Suggestions greatly appreciated.? I am a beginner and this is my first
 > time
 > posting.
 >
 > I would like to get the summary for indicator species analysis, using
 > package indicspecies with multipatt.? I am getting errors, I believe, do
 > to
 > my data organization.? After reorganizing and reorganizing, nothing has
 > helped.
 >
 >> data<- read.csv(file="Data1.csv", header=TRUE, row.names=1, sep=",")
 >> ap<-data[c(1:24, 1:81)]
 >> groups<-c(rep(1:4,6))
 >> indval<- multipatt(ap, groups, control = how(nperm=999))
 > *Error in tx? %*% comb : non-conformable arguments*
 >
 >
 >
 > --
 > Ansley Silva
 >
 >
 > *"The clearest way into the Universe is through a forest wilderness."
 > John
 > Muir*
 >
 >
 > *Graduate Research Assistant*
 > ______________________________________________
 > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
 > https://stat.ethz.ch/mailman/listinfo/r-help [https://stat.ethz.ch/mailman/listinfo/r-help]
 > PLEASE do read the posting guide
 > http://www.R-project.org/posting-guide.html [http://www.R-project.org/posting-guide.html]
 > and provide commented, minimal, self-contained, reproducible code.

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Ansley Silva

	_
_

	_"The clearest way into the Universe is through a forest wilderness." John Muir_

	_
_

	_Graduate Research Assistant_
__

	_University of Georgia_
__

	_D.B. Warnell School of Forestry and Natural Resources_
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	_180 East Green Street_
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	_Athens, GA 30602_

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