[R] Problem with ordiellipse coloured factor in Vegan

[John Kane]

No data.  The list tends to strip out many kinds of attachements including csv files. I'd suggest trying .txt or parking the data at someplace like [url=http://www.mediafire.com/][b]MediaFire[/b][/url] or
Dropbox [url=https://www.dropbox.com/][b]Dropbox[/b][/url]

John Kane
Kingston ON Canada


> -----Original Message-----
> From: suparna.mitra.sm at gmail.com
> Sent: Fri, 17 May 2013 11:56:52 +0800
> To: r-help at r-project.org
> Subject: [R] Problem with ordiellipse coloured factor in Vegan
> 
> Hello R experts,
>   I am trying to plot ordiellipse for my data but the col according to
> factors.
> 
> Metabolites_raw= read.csv(file.choose(), head = TRUE) #file
> 21Metabolites.csv
> 
> Metabolites_t=t(Metabolites_raw[,2:82])
> 
> ord <- metaMDS(Metabolites_t, distance="bray")
> 
> symbol=as.numeric(Metab_metadata$LandType)
> 
> col.list <- c("red","slategray","seagreen","cyan","pink","brown","black",
> "blue","yellow","magenta")
> 
>  palette(col.list)
> 
>  plot(ord$points, col = Metab_metadata$Day+2,pch=symbol,
> xlim=c(-0.3,0.35))
> 
> legend(.28,.25, c("0", "8", "16"),fill = c(2, 10,18))
> 
> # draw dispersion ellipses around data points
> 
> groupz <-c(2,10,18)
> 
> for(i in seq(groupz)) {
> 
> ordiellipse(ord, Metab_metadata$Day, kind = "sd", label =
> T,col=groupz[i],
> show.groups=groupz[i])
> 
> }
> 
> Now here I get the error
> 
> Error in text.default(...) : no coordinates were supplied (But sometimes
> same code works. I am not sure what am I doing wrong.)
> 
> Data files are attached.
> 
> Any help will be really great.
> 
> Thanks,
> 
> Mitra
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