Hi List, Im using the vegan function specaccum to produce a rarefaction curve. In the functions help it says: Function specaccum finds species accumulation curves or the number of species for a certain number of sampled sites or individuals. Well, I would like to finds this curve for individuals, but when I compute it the function (using the rarefaction method) gives me Sites, Richness and Standand Deviation as values. When I plot it, y axis is the richness (ok with that) and x axis is Sites (here is the question), how could I make it calculate and plot the accumulating individuals number?
Well, one problem may be the fact that my data frame has species as columns and Sites as rows (and abundance data frame) May you help me? Ps.: The rarefaction method option brings this details: All these methods are based on sampling sites without replacement. In contrast, the method = "rarefaction" finds the expected species richness and its standard deviation by sampling individuals instead of sites. Exactly what I really want, but not what I get! Here is the command line used. plot(specaccum(Spp[,-227],'rarefaction'),col='black',lwd=2,ci.lty=0,ci.type= 'poly',ci.col='lightgray',ylab='Riqueza',ylim=c(0,250),yaxp=c(0,250,10),bty= 'n',main='Fauna Viva - Bacia de Campos - Março 2009') Thank you very much. Regards. ------------------------------------------------------------- MSc. <mailto:r.alui...@gmail.com> Rodrigo Aluizio Centro de Estudos do Mar/UFPR Laboratório de Micropaleontologia Avenida Beira Mar s/n - CEP 83255-000 [[alternative HTML version deleted]]
______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
