mwd at cray.com (Mark Dalton) writes:
> I want to see a free package available for researchers to do
>exactly what you asked for. Basically the human genome project is supplying
>a lot of sequence (along with other projects) and the information is not
>really being looked at, even that which can be automated.
>These are my thoughts:
>This is the basic automated structure. It can be turned "on" or "off"
>at any point. It would be ideal to have both a text interface and
>GUI interface. I would like to see the Graphic displays in X or motif.
>Also have output to postscript (black-white and color) printers or an
>option as ascii.
> /RNA structure / Including known motifs
> / comparison /
> / /structural
> /RNA structure /Motif search / prediction
> / / /
>DNA sequence ------protein ----- structure --- structural similarity search
> \ \
> \Databank search \Databank search
> \ \
> \Multiple \Multiple alignment
> \sequence \
> \alignment \
> \ phylogenetic
> phylogenetic ananlysis
<WARNING: shameless plug for a friend's work>
Sounds an awful lot like Steve Smith's GDE (okay, okay -- so you
are "stuck using X-Windows"). -- available as always from
golgi.harvard.edu in the pub/GDE directory for the grand sum of $0.00.
Also, while some of your diagram isn't in GDE, GDE is fully user-extensible
so you are free to add whatever is missing.
Department of Cellular and Developmental Biology
Department of Genetics / HHMI
robison at biosun.harvard.edu