[EMBOSS] SeaView

[Staffa, Nick (NIH/NIEHS)]

Thanks.
I didn¹t know CLC gave away anything.
I printed out the manual(179 pages!), and it looks real spiffy.
Must say that SeaView¹s gray background makes reading sequence difficult.


On 7/18/08 10:19 AM, "Andres Pinzon" <andrespinzon at gmail.com> wrote:

> Hi Nick,
> It is also available on Ubuntu hardy. Have you ever used CLC sequence viewer?
> 
> http://www.clcbio.com/index.php?id=28
> 
> Thats the editor we use here at the Colombia node, and I think it is one of
> the most
> intuitive tools I have ever tried. It has most of the seaview features (plus
> some others) runs
> under several platforms, is free and is really easy to install (no
> dependencies, just java).
> 
> The following address lists all the available features (for this and other CLC
> versions):
> 
> http://www.clcbio.com/index.php?id=89
> 
> Best,
> 
> On Fri, Jul 18, 2008 at 7:48 AM, Guy Bottu <gbottu at vub.ac.be> wrote:
>> Staffa, Nick (NIH/NIEHS) wrote:
>>> I would really appreciate any evaluation of the editor SEAVIEW by anyone
>>> reading this.
>>> Do you think SeaView is as good as SeqLab
>> 
>>         Dear Nick,
>> 
>> Well, at the BEN site I installed SeaView as replacement, when we lost
>> GCG+SeqLab. SeqLab does multiple sequence editing + graphical display of
>> features + allows to execute programs on sequence (ranges). SeaView is
>> basically just an editor (although it can call clustal or muscle to re-align
>> portions of the aligment, and make a dotplot). What I find a great loss is
>> that in SeqLab you can with the mouse select a block and then with one click
>> delete it, while with SeaView you need to press as many time the <backspace>
>> as there are columns to delete. But if you have nothing else SeaView is
>> certainly not bad. It has the advantage to be freeware and that there are
>> versions for several platforms.
>> You can install it and test it yourself. It is in principle easy to install
>> (although there might be problems with prerequisite libraries). You can
>> obtain it from ftp://pbil.univ-lyon1.fr/pub/mol_phylogeny/seaview (and in
>> some LINUX distributions like Gentoo it is actually vailable). If you run
>> into trouble I am willing to give some advice.
>> 
>>         Regards,
>>         Guy Bottu,
>>         Belgian EMBnet Node
>> _______________________________________________
>> EMBOSS mailing list
>> EMBOSS at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/emboss
> 
>