Re: [R-sig-eco] readOGR and Multiple incompatible geometries in rgdal

2015-01-20 Thread Ivailo
. The workhorse in QGIS is gdal as in rgdal, so suppose something may be possible. Best, Patrick Patrick, I don't know the answer to your question but if you post it on the R-sig-Geo list (https://stat.ethz.ch/mailman/listinfo/r-sig-geo) you might get a satisfying answer faster. Cheers, Ivailo

Re: [R-sig-eco] Extract residuals from adonis function in vegan package

2014-03-18 Thread Ivailo
if these are not further classified into meaningful clusters; although you didn't provide more details on how the forest patches relate to the regions you wrote about) to run the analysis. HTH, Ivailo -- The cure for boredom is curiosity. There is no cure for curiosity. -- Dorothy Parker

Re: [R-sig-eco] How to accommodate data with negative values for Canonical Correspondence Analysis in R using vegan Package

2014-02-26 Thread Ivailo
On Wed, Feb 26, 2014 at 2:43 PM, Rajendra Mohan panda rmp.iit@gmail.com wrote: ... I have temperature data with negative values which I am not able to include for my CCA ordination. ... Rajendra, I am curious -- why are you not able to include the negative values in the CCA ordination? --

Re: [R-sig-eco] angular statistics

2013-10-17 Thread Ivailo
that although I don't have the book, I found the radiation measures presented in the following paper: McCune, B. and D. Keon. 2002. Equations for potential annual direct incident radiation and heat load. Journal of Vegetation Science 13:603–606. Cheers, Ivailo -- UBUNTU: a person is a person through other

Re: [R-sig-eco] PCNM function

2013-08-21 Thread Ivailo
says that it cannot find the boot function, so try install.packages(boot) and then library(boot) if you have it installed. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org

Re: [R-sig-eco] Offsets in Poisson or Neg. Bin regression

2013-06-27 Thread Ivailo
On Wed, Jun 26, 2013 at 12:42 PM, Scott Foster scott.fos...@csiro.au wrote: Hi again Ivailo, Yes, the `offset' and the covariate are the same thing. Including them both simply alters the functional form of the linear predictor in your model. No, they are not collinear in the typical sense

Re: [R-sig-eco] Offsets in Poisson or Neg. Bin regression

2013-06-26 Thread Ivailo
On Tue, Jun 25, 2013 at 2:02 PM, Scott Foster scott.fos...@csiro.au wrote: Hi Ivailo, Good question. Difficult to answer, which is probably why you haven't had any responses yet (that the list has seen). If you include an offset term with a log link function then you are assuming

[R-sig-eco] Offsets in Poisson or Neg. Bin regression

2013-06-19 Thread Ivailo
, and if it's coefficient is around 1 to be taken as an indicator that it is better that variable to be included in the model as an offset? Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r

Re: [R-sig-eco] quantifying directed dependence of environmental factors

2013-03-08 Thread Ivailo
, Structural Equations and Causal Inference, Cambridge University Press, Cambridge, UK, 2000. I recently stumbled on a great book on path modelling using PLS (with R) that is freely downloadable at http://is.gd/BxqIEL Ivailo -- UBUNTU: a person is a person through other persons

Re: [R-sig-eco] Defining Different Groups with Nonparametric Data (vegan package)

2012-11-26 Thread Ivailo
the dendrogram), but I am not sure if this wouldn't be regarded as circular reasoning. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology

Re: [R-sig-eco] Post-hoc test after rm-ANOVA

2012-09-14 Thread Ivailo
glht() from the multcomp package if you have a lm() object. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology

Re: [R-sig-eco] option --enable-R-shlib

2012-06-15 Thread Ivailo
) appears in the resulting list, then you have R built with --enable-R-shlib. And, if need be, how do I enable that option? If needed, you can enable this option during the build process by passing the option, e.g. ./config --enable-R-shlib, just before make. Hope this helps, Ivailo -- UBUNTU

Re: [R-sig-eco] option --enable-R-shlib

2012-06-15 Thread Ivailo
On Fri, Jun 15, 2012 at 6:20 PM, Michel Rapinski mrapi...@uottawa.ca wrote: Hi Ivailo, Do I run this command in R? Or in terminal? Maybe I should have added that I have a mac, I don't know if that makes a difference. Sorry, Michel, I missed to mention that ldd needs to be run in the terminal

Re: [R-sig-eco] species richness

2012-05-31 Thread Ivailo
of the proportion of hon-herbivores in the sample(s)? Hope this helps, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology

Re: [R-sig-eco] QIC (quasi-likelihood information criterion) in gee

2012-05-10 Thread Ivailo
On Thu, May 10, 2012 at 3:51 PM, Wagner Tassinari wtassin...@yahoo.com.br wrote: Hi, I'd like to know how extract the QIC (quasi-likelihood information criterion) in GEE model (using gee or geeglm commands) in R. Hi Walter! I think this - http://is.gd/myQ6IZ - could help. Cheers, Ivailo

Re: [R-sig-eco] Testing difference between diversity indices with vegan::oecosimu

2012-04-26 Thread Ivailo
;-) Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology

Re: [R-sig-eco] How to calculate geographical coordinates of sampling points following (by bearing and distance) a georeferenced one?

2012-04-09 Thread Ivailo
package and the destPoint() function seems to do exactly what I was searching for. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r

[R-sig-eco] How to calculate geographical coordinates of sampling points following (by bearing and distance) a georeferenced one?

2012-04-05 Thread Ivailo
(by using some of the spatial R-packages) the geographic coordinates of the sapling plots at each location that have not been explicitly georeferenced? Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list

Re: [R-sig-eco] adonis: error in rowSums

2012-02-09 Thread Ivailo
the predictor variable pred.var - sampledata[,1] # perform MANOVA model - adonis(dep.var ~ pred.var, permutations = 999,method = canberra, strata = NULL) Hope this helps, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing

Re: [R-sig-eco] Comparison of gam and gamm fits

2012-02-08 Thread Ivailo
the figure somewhere and post the link instead. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology

Re: [R-sig-eco] adonis: error in rowSums

2012-02-08 Thread Ivailo
not sure if the adonis() function would be appropriate for the analysis you're trying to perform. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch

Re: [R-sig-eco] question concerning nmds.min

2012-02-02 Thread Ivailo
' Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology

Re: [R-sig-eco] question concerning nmds.min

2012-02-02 Thread Ivailo
correlation coefficient. Function stressplot displays the nonlinear fit and gives this statistic. HTH, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman

Re: [R-sig-eco] glmmADMB v 0.7.1

2012-01-12 Thread Ivailo
to any process. Perhaps you need to try running your model on a 64-bit machine. Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig

Re: [R-sig-eco] fitting multiple variance structures in gamm

2012-01-05 Thread Ivailo
routine dgesv: system is exactly singular Dear Marc, as the error message says, it appears that the covariance matrix is singular and.cannot be inverted. You should check your covariates to see if one of these is not a function of the other. Cheers, Ivailo -- UBUNTU: a person is a person

Re: [R-sig-eco] Nestedness analyses in Vegan

2011-12-05 Thread Ivailo
to study (common) species responses to the three killing solutions. I don't have an answer for that, but perhaps someone on the list might provide further insight... Cheers, Ivailo -- UBUNTU: a person is a person through other persons. ___ R-sig-ecology