R help - Aug 2015 - How to obtain the unique communities when plotting VENNs?

Hey there guys.

I am having a question about Venn diagrams.
A colleague wrote a script based on the VennDiagram package a while ago,
that I was able to adapt for my data. I wanted a Venn for the soil bacterial
communities derived from forests of 4 different tree species.
It worked fine for me, however my question is: 

Is there a possibility to somehow obtain a list of the unique populations of
each of the for categories?
<http://r.789695.n4.nabble.com/file/n4711056/Venntrees.png> 

That's what the Venn looks like. Now I'd like to now the 426 community
members, that seem to be unique for beech forest, the 45 for pine, ect ect.
I feel like this is a tough call because of all the intersecting that had to
be done before. These are the Intersects:
N12 = InterSect(AKL_beech,AKL_oak)#(1,2)
N13 = InterSect(AKL_beech, AKL_pine)#(1,3)
N14 = InterSect(AKL_beech, AKL_spruce)#(1,4)
N23 = InterSect(AKL_oak,AKL_pine)#(2,3)
N24 = InterSect(AKL_oak,AKL_spruce)#(2,4)
N34 = InterSect(AKL_pine,AKL_spruce)#(3,4)
length(N234) - length(N1234)
N1234 = InterSect(N12,N34)
N123 = InterSect(N12,AKL_pine)
length(N123) - length(N1234)
N124 = InterSect(N12,AKL_spruce)
length(N124) - length(N1234)
N134 = InterSect(N13,AKL_spruce)
length(N134) - length(N1234)
N234 = InterSect(N23,AKL_spruce)

Does anyone has an idea how to do it? I'm completely at loss by now, since I
am also not a pro concerning R, or statistics.
I'd be happy to hear what you come up with.
Thanks so much in advance!

Best, Krissey




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Hi Krissey,

I don't have an answer for you but here are some hints on how to ask
questions on R-help.
http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example
and http://adv-r.had.co.nz/Reproducibility.html

In particular we probably need your actual code and some sample data.  Use
dput() see ?dput or read about it in the above links.

John Kane
Kingston ON Canada

> -----Original Message-----
> From: kristin.kaiser at web.de
> Sent: Thu, 13 Aug 2015 00:57:57 -0700 (PDT)
> To: r-help at r-project.org
> Subject: [R] How to obtain the unique communities when plotting VENNs?
> 
> Hey there guys.
> 
> I am having a question about Venn diagrams.
> A colleague wrote a script based on the VennDiagram package a while ago,
> that I was able to adapt for my data. I wanted a Venn for the soil
> bacterial
> communities derived from forests of 4 different tree species.
> It worked fine for me, however my question is:
> 
> Is there a possibility to somehow obtain a list of the unique populations
> of
> each of the for categories?
> <http://r.789695.n4.nabble.com/file/n4711056/Venntrees.png>
> 
> That's what the Venn looks like. Now I'd like to now the 426
community
> members, that seem to be unique for beech forest, the 45 for pine, ect
> ect.
> I feel like this is a tough call because of all the intersecting that had
> to
> be done before. These are the Intersects:
> N12 = InterSect(AKL_beech,AKL_oak)#(1,2)
> N13 = InterSect(AKL_beech, AKL_pine)#(1,3)
> N14 = InterSect(AKL_beech, AKL_spruce)#(1,4)
> N23 = InterSect(AKL_oak,AKL_pine)#(2,3)
> N24 = InterSect(AKL_oak,AKL_spruce)#(2,4)
> N34 = InterSect(AKL_pine,AKL_spruce)#(3,4)
> length(N234) - length(N1234)
> N1234 = InterSect(N12,N34)
> N123 = InterSect(N12,AKL_pine)
> length(N123) - length(N1234)
> N124 = InterSect(N12,AKL_spruce)
> length(N124) - length(N1234)
> N134 = InterSect(N13,AKL_spruce)
> length(N134) - length(N1234)
> N234 = InterSect(N23,AKL_spruce)
> 
> Does anyone has an idea how to do it? I'm completely at loss by now,
> since I
> am also not a pro concerning R, or statistics.
> I'd be happy to hear what you come up with.
> Thanks so much in advance!
> 
> Best, Krissey
> 
> 
> 
> 
> --
> View this message in context:
>
http://r.789695.n4.nabble.com/How-to-obtain-the-unique-communities-when-plotting-VENNs-tp4711056.html
> Sent from the R help mailing list archive at Nabble.com.
> 
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> 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.
____________________________________________________________
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Thanks a lot John - I will set up a new post and hopefully do better :)



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