[R-sig-eco] RDA

[Richards, Christina]

Hi Dr. Oksanen!

Its very gracious of you to respond. On another important note, this is the citation suggested for the vegan package:

Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, Simpson GL, Solymos P, Stevens MHH, Wagner H. (2015) vegan: Community Ecology Package. R package version 2.2-1. http://CRAN.R-project.org/package=vegan 

Is this the most appropriate for our purposes (using Adonis and capscale in Vegan)?

Christina Richards, Ph.D.
University of South Florida
Department of Integrative Biology
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Tampa, FL 33620
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________________________________________
From: Jari Oksanen <jari.oksanen at oulu.fi>
Sent: Thursday, November 26, 2015 1:15 PM
To: Marcelino de la Cruz
Cc: Richards, Christina; r-sig-ecology at r-project.org; Robertson, Marta; Verhoeven,      Koen; Alvarez, Mariano; Foust, Christy
Subject: Re: [R-sig-eco] RDA

> On 26 Nov 2015, at 20:05 pm, Marcelino de la Cruz <marcelino.delacruz at upm.es> wrote:
>
> El 26/11/2015 a las 16:27, Richards, Christina escribió:
>> Hello!
>>
>> That is very helpful and seems to work! Thank you!!
>>
>> I did not realize we could use raw data in capscale,
> We could and we should! Currently, it is the only way to achieve it.
>
> is this true only because it is conditioning variables?
> It seems that the current implementation of capscale only accepts a single *data.frame* for both explanatory and conditioning variables
>
Yes, this is true: current and *future* implementations of capscale/rda/cca (and future dbrda) will only have one data= argument. However, in addition to variables in the data frame given in data=, you can mix variables in the work environment in your formula. If you think you need to have several data frames for the data= argument, please consider cbind().

cheers, Jari Oksanen