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Dear Thierry, sorry for beeing imprecise, I provided clearer details below - do you create 6 plates on day 0 and measure them on day 1, 2, ... or do you fill a new plate each day with the content of the...

Dear List-members, recently, the R2 calculations for GLMMs invented by Schielzieth and Nakagawa 2012 [1] were implemented into the MuMIn package. This is incredibly good news, as many colleagues still require R2 to understand a model output. I invested...

Dear Sarah, Jari and Peter, let me summarize what has been written so far 1) Jari said that: dbRDA needs rectangular data on right hand side of the formula --> dist.matrix on RHS leads to a lack of independence *no...

Dear All, I have run into a number of questions, and thus I hope you could help me out. I am modelling the effect of oyster density and nutrients on the bodyweight of mussels (population average). Data was sampled at...

Dear Ben and Thierry, thank you very much for your advice! I think you are perfectly right concering the overcomplication thing. I have checked again the residuals of the "lm" and, everything is fine. Now, back to the roots... thank...

Hi again, our distance matrices are 1) genetic distance (Jaccard) and 2) 3D-Euclidean Distance and the question we want to solve is if there is an effect called "Isolation by Distance" (IBD) in our data (genetic and "real"-distances...

Dear List readers, we are studying effects of chemical therapies on the proliferation of cancer cell lines. My question aims at the practical application of a Mixed Effect Model (lme in R) of a particular analysis of a cell culture...

Dear Ben, > How many levels of "bank" are there? there are four banks, thus four levels and ... > How many observations do you have overall? fourty values overall which are roughly equally distributed i.e. 10, 7,10,13. > I take...

Dear Thierry, > lme(response ~ treatment, random = ~1|day) In fact, this is exactly what we did. The problem we have that there 469 degrees of freedom. By averaging there are only 6 dfs left. Thus the question was "are we...

Dear Douglas, many thanks for your thoughts. I understand that R2 is not perfectly correct for GLMs or anything more complicated. But still... In my example, I calculated now these 20 negbin GLMMs and if anybody asks me how reliable...

Dear Thierry, thank you very much for your help! However, I think I have not explained my approach very good. I am using this formula M1.1.lme <- lme(aWert ~ Salinity + pH + chl.a + NO3 + oyster_qm + meanspring, random = ~ 1...

Thanks to all the repliers so far, and in particular thanks to Ben Bolker for the posterior predictive test example on RPubs! I did not work with Baysian stats so far, but I see that it is necessary, not only...

Dear R-Users, I have a problem and I have already surveyed different packages especially in the Spatial-TASK view but did not find something applicable. :( I am looking for a solution on how to sample increasing sizes of "quadrats...