[R-sig-eco] GAM (mgcv) model & variable importance

Dear R list, I’m trying to do a GAM model / variable importance using the mgcv R package. I’ve been googling around, and found posts stating that select=T is a good way to "penalized out” less important variables. m1

Re: [R-sig-eco] 3d box plot

Check out {scatterplot3d} and {rgl}. Cheers, Johannes On Nov 8, 2015, at 12:11 PM, Paolo Piras wrote: > Hi folks, > anyone could address me towards a R function/package able to do a 3d boxplot > similar to > > http://158.132.155.107/oess/POSH/StatSoft/popups/popup125.gif > > Thanks in

Re: [R-sig-eco] relate environmental parameters to OTU network

Hi Bjorn, You could check out Local Similarity Analysis (http://meta.usc.edu/softs/lsa/) or alternatively, network assortativity e.g. in {igraph} http://www.inside-r.org/packages/cran/igraph/docs/assortativity Hope it helps, Cheers, Johannes On May 11, 2015, at 4:40 PM, Bjorn Tytgat wrote:

[R-sig-eco] bayesian conjugate priors for the double exponential distribution?

Dear all, I'm trying to fit a GML model (a ANCOVA using rjags) where the predicted/dependent variable y is a index ranging from 0-to-1 (hence continuous) and is negatively skewed (see histogram below). While googling, I came across the Gumbel Min distribution- aka log-Weibull / double

Re: [R-sig-eco] probability distribution for zero-inflated, right skewed data

Definitely looks promising. Thanks Bob! On Jun 16, 2014, at 2:29 PM, Bob O'Hara wrote: On 16/06/14 13:57, Johannes Björk wrote: Dear all, Im looking into how to fit a GLM model (Im using rjags) with data that are heavily right skewed. In addition, some variables also zero-inflated

Re: [R-sig-eco] Vegan-Adonis-NMDS-SIMPER

Hi, For that I believe you can run TukeyHSD.betadisper... to getting significant values between levels. see ?TukeyHSD.betadisper Cheers, On Mar 27, 2014, at 1:47 PM, Brandon Gerig wrote: Hi Steve, Yes, this is precisely what I am interested in doing. It seems like betadisper might be a

[R-sig-eco] Adonis Vs. AMOVA

I am currently trying to figure out the differences between Adonis {vegan} and Analysis of Molecular Variances AMOVA {e.g. Ade4}. I know that Adonis tests if the position of the centroids (belonging to groups or species) are different and that this is an approximation of compositional (beta