Re: [R-sig-eco] DCCA in R?
You are right, Attila, I missed the canonical part. It is either detrended & unconstrained (decorana) or plain & constrained/canonical (cca). Cheers, Peter On Wed, Nov 11, 2020 at 3:27 PM Attila Lengyel wrote: > Dear Peter, > > as far as I know, vegan::decorana does not do DCCA (detrended canonical > correspondence analysis) but the unconstrained DCA. If anyone knows the > answer for Jonathan's question, please, share it with me, I would also be > interested. > Best regards, > > Attila > > Peter Solymos ezt írta (időpont: 2020. nov. 5., Cs, > 19:19): > >> Jonathan, >> >> Have you checked ?vegan::decorana (it is also mentioned in the vignette on >> p 2: >> https://cran.r-project.org/web/packages/vegan/vignettes/intro-vegan.pdf >> ) >> >> Cheers, >> >> Peter >> >> On Thu, Nov 5, 2020 at 11:03 AM Jonathan Gordon < >> jonathangordon...@gmail.com> >> wrote: >> >> > Hello, >> > >> > I’m aiming to perform a detrended canonical correspondence analysis on a >> > pollen sequence, to create beta diversity curves for pollen sequences >> > through time. An example of this being done is in Felde (2019) < >> > https://link.springer.com/article/10.1007/s00334-019-00726-5>. As far >> as >> > I can tell, DCCA can’t be done in R packages such as vegan, and can >> only be >> > completed in Canoco. I’m keen not to use Canoco because it's not open >> > access and the processes behind the interface are obscured, making for a >> > non-repeatable methodology. Please could you advise any way for me to >> > perform a DCCA to obtain my desired results, or of a different method? >> > >> > Best wishes, >> > Jonny >> > [[alternative HTML version deleted]] >> > >> > ___ >> > R-sig-ecology mailing list >> > R-sig-ecology@r-project.org >> > https://stat.ethz.ch/mailman/listinfo/r-sig-ecology >> > >> >> >> -- >> Péter Sólymos, PhD >> Senior Statistical Ecologist >> soly...@ualberta.ca 780-492-8534 >> Alberta Biodiversity Monitoring Institute http://www.abmi.ca >> Boreal Avian Modelling Project http://www.borealbirds.ca >> >> [[alternative HTML version deleted]] >> >> ___ >> R-sig-ecology mailing list >> R-sig-ecology@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-ecology >> > -- Péter Sólymos, PhD Senior Statistical Ecologist soly...@ualberta.ca 780-492-8534 Alberta Biodiversity Monitoring Institute http://www.abmi.ca Boreal Avian Modelling Project http://www.borealbirds.ca [[alternative HTML version deleted]] ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology
Re: [R-sig-eco] DCCA in R?
Dear Peter, as far as I know, vegan::decorana does not do DCCA (detrended canonical correspondence analysis) but the unconstrained DCA. If anyone knows the answer for Jonathan's question, please, share it with me, I would also be interested. Best regards, Attila Peter Solymos ezt írta (időpont: 2020. nov. 5., Cs, 19:19): > Jonathan, > > Have you checked ?vegan::decorana (it is also mentioned in the vignette on > p 2: > https://cran.r-project.org/web/packages/vegan/vignettes/intro-vegan.pdf > ) > > Cheers, > > Peter > > On Thu, Nov 5, 2020 at 11:03 AM Jonathan Gordon < > jonathangordon...@gmail.com> > wrote: > > > Hello, > > > > I’m aiming to perform a detrended canonical correspondence analysis on a > > pollen sequence, to create beta diversity curves for pollen sequences > > through time. An example of this being done is in Felde (2019) < > > https://link.springer.com/article/10.1007/s00334-019-00726-5>. As far as > > I can tell, DCCA can’t be done in R packages such as vegan, and can only > be > > completed in Canoco. I’m keen not to use Canoco because it's not open > > access and the processes behind the interface are obscured, making for a > > non-repeatable methodology. Please could you advise any way for me to > > perform a DCCA to obtain my desired results, or of a different method? > > > > Best wishes, > > Jonny > > [[alternative HTML version deleted]] > > > > ___ > > R-sig-ecology mailing list > > R-sig-ecology@r-project.org > > https://stat.ethz.ch/mailman/listinfo/r-sig-ecology > > > > > -- > Péter Sólymos, PhD > Senior Statistical Ecologist > soly...@ualberta.ca 780-492-8534 > Alberta Biodiversity Monitoring Institute http://www.abmi.ca > Boreal Avian Modelling Project http://www.borealbirds.ca > > [[alternative HTML version deleted]] > > ___ > R-sig-ecology mailing list > R-sig-ecology@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-ecology > [[alternative HTML version deleted]] ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology
Re: [R-sig-eco] DCCA in R?
Jonathan, Have you checked ?vegan::decorana (it is also mentioned in the vignette on p 2: https://cran.r-project.org/web/packages/vegan/vignettes/intro-vegan.pdf ) Cheers, Peter On Thu, Nov 5, 2020 at 11:03 AM Jonathan Gordon wrote: > Hello, > > I’m aiming to perform a detrended canonical correspondence analysis on a > pollen sequence, to create beta diversity curves for pollen sequences > through time. An example of this being done is in Felde (2019) < > https://link.springer.com/article/10.1007/s00334-019-00726-5>. As far as > I can tell, DCCA can’t be done in R packages such as vegan, and can only be > completed in Canoco. I’m keen not to use Canoco because it's not open > access and the processes behind the interface are obscured, making for a > non-repeatable methodology. Please could you advise any way for me to > perform a DCCA to obtain my desired results, or of a different method? > > Best wishes, > Jonny > [[alternative HTML version deleted]] > > ___ > R-sig-ecology mailing list > R-sig-ecology@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-ecology > -- Péter Sólymos, PhD Senior Statistical Ecologist soly...@ualberta.ca 780-492-8534 Alberta Biodiversity Monitoring Institute http://www.abmi.ca Boreal Avian Modelling Project http://www.borealbirds.ca [[alternative HTML version deleted]] ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology
