[Jalview-discuss] numbering

[Geoff Barton]

Although you can't do this in Jalview, you can do it in ALSCRIPT. 
However, ALSCRIPT takes a lot more learning than Jalview - it is a 
command-driven program rather than graphical point-and-click.  It may be 
easier for a one-off alignment just to modify a .ps file in Illustrator.

Geoff.


On Sat, 12 Jan 2008, Jim Procter wrote:

> Hi  Dave.
>
> David Garboczi wrote:
>> I would like the numbering across the top of the alignment to start at 
>> other than 1.  I'd like the first residue of the top sequence to be 6, for 
>> instance.
>> How to do it?
>> 
>> 2nd question,  I would like the numbering to follow the number of residues 
>> of the top sequence. not assigning numbers to gaps.
> These questions sound like much the same thing. Basically, you'd like to be 
> able to pick what coordinate system is used for the alignment ruler - 
> alignment columns, or the positions w.r.t.one of the aligned sequences.
>> 
>> Or are these items I should change in Illustrator?
> for the moment, yes. I can see that this would be a very useful thing to be 
> able to do - but there isn't any way to do this in Jalview as it stands. I 
> also know how much of a pain it will be making these changes by hand in 
> illustrator.
>
> sorry.
> Jim.
>
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-- 
Geoff Barton, Professor of Bioinformatics,   School of Life Sciences
University of Dundee, Scotland, UK.       geoff at compbio.dundee.ac.uk
Tel:+44 1382 385860/388731 (Fax:385764)     www.compbio.dundee.ac.uk