[R] Symbols on a capscale object plot

[Rodrigo Aluizio]

Thank You Mark,
With your tip now I'm able to chance the sites names for real symbols. Well,
now I just have to find out how to change groups of sites names, that
compose a 'biofacies', with different symbols (actually six groups) in the
same plot.
Maybe if I can define a factor that specifies these groups and use this
factor to assign the symbols.
I don't know, I've to try, but I'm getting something, I hope.

Rodrigo.

--------------------------------------------------
> From: "Mark Difford" <mark_difford em yahoo.co.uk>
> Sent: Saturday, September 13, 2008 9:21 AM
> To: <r-help em r-project.org>
> Subject: Re: [R] Symbols on a capscale object plot
>
>>
>> Hi Rodrigo,
>>
>>>> I would like to use something like squares, triangles and circles 
>>>> (filled
>>>> and empty).
>>
>> You would normally add this using points():
>> ?points
>>
>> ##
>> plot(1:10, type="n")
>> points(1:5, pch=21:25, bg=1:5)
>> points(6:10, pch=21:25, bg=c(1,"darkgrey","cyan", "bisque"))
>> points(6:10, y=rep(6,5), pch=1:5)
>>
>>
>> I don't know what vegan is doing at the moment but there used to be a 
>> points
>> command for doing this (sub ordiplot, I think). Vegan mostly still uses 
>> base
>> graphics so you can always get your scores [via: scores(ord.object): see
>> ?scores] from your saved ordination object and add them as per above.
>>
>> Regards, Mark.
>>
>>
>> Rodrigo Aluizio wrote:
>>>
>>> Hi, I'm a beginner with R, but I'm getting excellent results with it.
>>> Well I've got an capscale object (vegan package) and I want to made a
>>> biplot
>>> with symbols representing six groups of areas.
>>> With the plot.cca function and some par attributes (like 'labels') I was
>>> able to substitute the samples names for keyboard symbols
>>> ('x','o','#',ect),
>>> but it's far from the ideal.
>>> I've already search about it and find something using 'Hershey' fonts
>>> symbols for a scatterplot, but it didn't work for the biplot (capscale
>>> object).
>>> I would like to use something like squares, triangles and circles 
>>> (filled
>>> and empty).
>>> Does anyone have and idea to solve it?
>>> Thank you for your attention and patience
>>> Sorry if the English is not that good, I'm Brazilian.
>>>
>>> Here is the script I'm using!
>>>
>>> # The analysis
>>> library(vegan)
>>> library(xlsReadWrite)
>>> PotiAbio<-read.xls('PotiAbioCanoco.xls',sheet=1,rowNames=T)
>>> PotiBio<-read.xls('FatorialReplica.xls',sheet=8,rowNames=T)
>>> attach(PotiAbio)
>>> LogPotiBio<-log(PotiBio+1)
>>> dbRDA<-capscale(t(LogPotiBio)~"Environmental 
>>> Variables",dist="bray",add=T)
>>> dbRDA
>>>
>>> #Preparing to generate and save the graphic
>>> SymbolsRep<-read.xls('Fatores.xls',sheet=2)
>>> tiff('dbRDAPontos.tif',width=1250,height=1250,res=150)
>>> plot.cca(dbRDA,type='none',display=c('bp','sites'))
>>> text.cca(dbRDA,dis='cn',col=323232,cex=0.7,lwd=2,lty='dotted')
>>> text.cca(dbRDA,dis='sites',col='black',cex=0.8,labels=FatoresSymbols$RepSimb)
>>> dev.off()
>>> ___________________________________
>>> MSc. Rodrigo Aluizio
>>> Centro de Estudos do Mar/UFPR
>>> Laboratório de Micropaleontologia
>>> Avenida Beira Mar s/n - CEP 83255-000
>>> Pontal do Paraná - PR - BRASIL
>>> Fone: (0**41) 3455-1496 ramal 217
>>> Fax: (0**41) 3455-1105
>>>
>>> ______________________________________________
>>> R-help em 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.
>>>
>>>
>>
>> -- 
>> View this message in context: 
>> http://www.nabble.com/Symbols-on-a-capscale-object-plot-tp19469679p19470027.html
>> Sent from the R help mailing list archive at Nabble.com.
>>
>> ______________________________________________
>> R-help em 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.
>>