[adegenet-forum] chooseCN

[Jombart, Thibaut]

Dear Johannes, 

I am sorry to read that you have been stuck all the day on this issue. 
If you are using the latest version of adegenet, the right command would be:

network <- chooseCN(mycoordinates, edit.nb=T)
mon1 <- monmonier(mycoordinates, mydistancamatrix, network)

To check adegenet version:
packageDescription("adegenet", fields = "Version")

should reply 1.2-3.

Best,

Thibaut.
--
######################################
Dr Thibaut JOMBART
MRC Centre for Outbreak Analysis and Modelling
Department of Infectious Disease Epidemiology
Imperial College - Faculty of Medicine
St Mary’s Campus
Norfolk Place
London W2 1PG
United Kingdom
Tel. : 0044 (0)20 7594 3658
t.jombart at imperial.ac.uk
http://www1.imperial.ac.uk/medicine/people/t.jombart/
http://adegenet.r-forge.r-project.org/
________________________________________
From: adegenet-forum-bounces at lists.r-forge.r-project.org [adegenet-forum-bounces at lists.r-forge.r-project.org] On Behalf Of Penner, Johannes [Johannes.Penner at mfn-berlin.de]
Sent: 08 May 2009 18:33
To: adegenet-forum at lists.r-forge.r-project.org
Subject: [adegenet-forum] chooseCN

Dear adegenet users,

I am trying to apply the Monmonier algorithm. Using

network <- chooseCN(mycoordinates, edit.nb=T)

I am able to edit depict and edit a network. However, when I later try
to apply the algorithm:

mon1 <- monmonier(mycoordinates, mydistancamatrix, network$cn, ...)

I consistently get the error: "cn ist not a nb object". It seems the
problem is that no nb object is created:
- The command "class(cn)" returns an error that "object 'cn" was not
found.
- The command "network$cn" returns the answer "NULL".

Despite trying all day, including reinstalling R and the packages, I was
not able to find a solution. I also tried all variations suggested in
the tutorial, manual and help files. Any help and suggestions are highly
appreciated!

Thank you very much in advance!

Best wishes
Johannes


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