[phylocom-user] phylocom-user Digest, Vol 2, Issue 3

Juan Pablo Gomez Echeverri ju-gome2 at uniandes.edu.co
Tue Aug 19 11:03:46 PDT 2008


Hi

I am having the same problem as you are.  I have tried with several  
phylogeny and traits files but the only way it worked for me was to  
use the exact output of the phylogeny form RAxML without prunning the  
phylogeny to the community list.  I am trying to solve this problem  
too.  Please let me know if you figure something out. I don´t know if  
it is a problem with branch length format or something like that.

Regards,

Juan P.
El ago 19, 2008, a las 12:19 p.m., phylocom-user-request at lists.phylodiversity.net 
  escribió:

> Send phylocom-user mailing list submissions to
> 	phylocom-user at lists.phylodiversity.net
>
> To subscribe or unsubscribe via the World Wide Web, visit
> 	http://lists.phylodiversity.net/listinfo.cgi/phylocom-user-phylodiversity.net
>
> or, via email, send a message with subject or body 'help' to
> 	phylocom-user-request at lists.phylodiversity.net
>
> You can reach the person managing the list at
> 	phylocom-user-owner at lists.phylodiversity.net
>
> When replying, please edit your Subject line so it is more specific
> than "Re: Contents of phylocom-user digest..."
>
>
> Today's Topics:
>
>   1. aot problem (Jenny Read)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Tue, 19 Aug 2008 08:27:56 +1000
> From: Jenny Read <jenny.read at sci.monash.edu.au>
> Subject: [phylocom-user] aot problem
> To: phylocom-user at lists.phylodiversity.net
> Message-ID: <48A9F76C.8080700 at sci.monash.edu.au>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>
> Hi,
>
> We are having a problem getting AOT to work (using Windows) in  
> Phylocom
> v. 4.  The output gives the numbers of traits, taxa, contrasts, but  
> does
> not give the VarCn or PicR ('NaN' is given).  I have no trouble  
> getting
> the example files to work, so I assume the problem is something to do
> with my file format (saved as text, tab-delimited, then renamed  
> without
> the extension).  We have tried quite a few variations on file
> formatting, but with no luck.  Can anyone suggest what we are doing
> wrong please ?
>
> Many thanks,
> Jenny.
>
>
> ------------------------------
>
> _______________________________________________
> phylocom-user mailing list
> phylocom-user at lists.phylodiversity.net
> http://lists.phylodiversity.net/listinfo.cgi/phylocom-user-phylodiversity.net
>
>
> End of phylocom-user Digest, Vol 2, Issue 3
> *******************************************

Juan Pablo Gomez
MSc Student
Laboratorio de Biología Evolutiva de Vertebrados
Universidad de los Andes
tel: 57 (1) 3394949 ext 3755
evolvert.uniandes.edu.co
ju-gome2 at uniandes.edu.co








More information about the phylocom-user mailing list