[ensembl-dev] name of node for reconstructed ancestral

[Javier Herrero]

Dear Lel

That functionality is implemented in the AlignSlice framework. I attach a 
script that uses the same strategy to show the little tree instead of the 
seq_region name.

Javier

On Wednesday 10 Nov 2010 14:57:24 Lel Eory wrote:
> Hello there,
> 
> Is there a way to get the name for the reconstructed ancestral node in a
> multiple sequence alignment through the perl API?
> E.g. when I get the 6 primates EPO alignment for a slice I can get the
> name for the leaves like "homo_sapiens", but for the reconstructed
> ancestrals I only get "ancestral_sequences".
> How can I get the newick formatted "definition" for the nodes like
> "(homo_sapiens,pan_troglodytes)" as it is shown on the website?
> Is this information stored somewhere or is it specified based on the
> order of sequences in the multiple sequence alignment?
> 
> Thanks,
> Lel
> 
> _____________________________________________________________________
>   Lel Eory
>   Institute of Evolutionary Biology
>   The University of Edinburgh
>   Ashworth Laboratories

-- 
Javier Herrero, PhD
Ensembl Compara Project Leader
European Bioinformatics Institute (EMBL-EBI)
Wellcome Trust Genome Campus, Hinxton
Cambridge - CB10 1SD - UK
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