[EMBOSS] Tree building

[Stephen Taylor]

Hi Frank,

> Hi Stephen,
>
>> However, I kind of need it today:-). I guess I'll have to truncate  
>> them
>> to something sensible for the time being...
>
> If you need a tree *today*... :-)  you could download our TOPALi  
> package (loads all formats of alignment)
>

I have already installed Topali and was waiting for the results to  
run. I have Over 1600 sequences and I wasn't sure when it was going to  
finish since I started it this morning (using the Quick NJ option on a  
Mac Mini). I think we should install it on a more powerful machine;-).

However, after I got your email I checked the status and the job had  
finished. Good timing...


> It does basic NJ, but also model-selection, PhyML, RaxML and  
> MrBayes.  RaxML is quite fast.
>
> We internally rename species names when TOPALi submits jobs to the  
> above external programs, but put the names back when we show the  
> alignment and the tree.



Yes, all the labels are there in full. Thanks a lot.

Peter - I can send you some date offline if you wish.

Steve