Re: [R-sig-eco] Heat Map for species - code from Numerical Ecology with R

Valarie, I too ran across this problem. vegmite operates on data with a single digit such as Braun-Blanquet cover estimates. Thus vegemite command will not work on data such as environmental data or biomass data unless you convert it to a single digit, causing you to loose a lot of information. So

Re: [R-sig-eco] Question about simprof

gt; CLARKE KR, SOMERFIELD PJ, GORLEY RN (2008) Exploratory null hypothesis >> > testing for community data: similarity profiles and biota-environment >> > linkage. J Exp Mar Biol Ecol 366, 56-69 >> > >> > >> > Best, >> > >> > --- >

Re: [R-sig-eco] Question about simprof

null hypothesis > testing for community data: similarity profiles and biota-environment > linkage. J Exp Mar Biol Ecol 366, 56-69 > > > Best, > > --- > Md. Abdul Halim > Assistant Professor > Department of Forestry and Environmental Science > Shahjalal

[R-sig-eco] Question about simprof

Dear R users, I am trying to conduct a simprof analysis to determine if groups of objects form statistically significant clusters. The variables that I am using are a mixture of categorical, ordered, and numerical. I am therefore using Gower's distance for this analysis. Below is the code with my

Re: [R-sig-eco] problem accessing help files

using R on my computer for a long time without this issue. 2) I believe the version of R that I am using is the current version. I will try out the actions that you suggested. Thanks for the help. On Wed, Sep 19, 2012 at 1:58 AM, Ivailo wrote: > On Wed, Sep 19, 2012 at 2:39 AM, Basil Iannone wr

[R-sig-eco] problem accessing help files

link to the file describing "anova" (just an example). I am using a PC with Windows XP. I was wondering if anyone else out there has had similar problems, and if so, how you resolved this issue. I searched for a while online, but could not find a resolution. Thanks for the help, -- Bas

[R-sig-eco] Question about gls output

Q1 Med Q3 Max -2.68192339 -0.67510193 -0.05998944 0.56286828 2.55012832 Residual standard error: 45.15951 Degrees of freedom: 96 total; 93 residual -- Basil Iannone University of Illinois at Chicago Department of Biological Sciences (MC 066) 845 W. Taylor St. Chicago,

[R-sig-eco] problem placing points on an effects plot for gls model

w() y1<-c(min(Y), max(Y)) x1<-c(min(X), max(X)) plot(effect('X', m1), xlim = x1, ylim = y1) points(Y~X, pch = 16, col = "black") Thanks a bunch for any suggestions that anyone can offer. -- Basil Iannone University of Illinois at Chicago Department of Biological Scienc

[R-sig-eco] bootstrapping gam models with multiple explanatory terms

n the bootstrapping code that would produce such a graphical output would be appreciated, especially since I am new to the bootstrapping coding. I hope that is clear and thanks in advance for any help that anyone can offer. -- Basil Iannone University of Illinois at Chicago Department of Biologic

Re: [R-sig-eco] significance of GAMM terms

ce of the variables - something like in this graph ( > http://dl.dropbox.com/u/52403158/F_value_plot.png). My number of samples > is > always the same (n=5478), but the number of terms in each areas model can > be different, and of course the degrees of freedom in the smooth terms are &g

Re: [R-sig-eco] marginal vs sequential results of lme

" differ from the results of "anova(m1, type >>> = "marginal")" and "summary(m1)." >>> >>> Thanks for your help, >>> >>Haven't spent a lot of time thinking this through, but I'm guessing >