[R] species accumulation curve with percentages

[Jim Lemon]

Hi Eddie,
Upon reading your initial request more carefully, the last command should be:

plot(nspec/nspec[50]*100,type="l",xlab="Sites",
 ylab="Species accumulation (%)",ylim=c(1,100))

Jim

On Wed, Jun 17, 2020 at 8:23 AM Jim Lemon <drjimlemon using gmail.com> wrote:
>
> Hi Eddie,
> I don't have the vegan package, but this may help:
>
> accum<-function(x,y) return(x+(y-x)/7)
> nspec<-90
> for(i in 2:50) nspec[i]<-accum(nspec[i-1],220)
> plot(nspec/nspec[1]*100,type="l",xlab="Sites",
>  ylab="Species accumulation (%)")
>
> Jim
>
> On Wed, Jun 17, 2020 at 1:15 AM Eddie Tsyrlin
> <tsyrline using student.unimelb.edu.au> wrote:
> >
> > I need to express species accumulation curve in percentage terms, i.e. the
> > vertical axis is from 1% to 100%
> > I have community data similar to BCI (from vegan package).
> > I can construct the 'usual' species curve (see below) but I need to convert
> > the species number to percentage.
> >
> > data("BCI")
> > bcispec<-specaccum(BCI, method = "random",
> >                    permutations = 100)
> > plot(bcispec)
> >
> > --
> > Eddie Tsyrlin, PhD Candidate | PEARG | Building 404, Grd Floor, Rm G21
> >
> > School of Biosciences | University of Melbourne
> > *Post:* Bio21,  Flemington Rd, Parkville VIC 3052
> > *m: *0413 995525
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> > and provide commented, minimal, self-contained, reproducible code.