A newer one for Ruby is (of course) BioRuby, which I use for simple
manipulation of sequences or chopping up structures.
It's quite nice for this, but I don't think it's as feature-rich as
Bio{Perl,Python,Java} though.
http://dev.bioruby.org/wiki/en/?cmd=view&p=How+do+I+get+the+sequence+of+a+chain%3F&key=PDB
http://dev.bioruby.org/wiki/en/?cmd=view&p=How+do+I+find+specific+atoms%2C+residues%2C+chains+or+models%3F&key=PDB
http://dev.bioruby.org/wiki/en/?cmd=view&p=How+do+I+write+a+structure+file%3F&key=PDB
Mark
On 22/01/2008, Claudine MAYER <[EMAIL PROTECTED]> wrote:
> Hi,
>
> You can use the on-line software EMBOSS.
> You can use it at the following site :
>
> http://bips.u-strasbg.fr/EMBOSS/
>
> enjoy it !
> Claudine
>
>
> Jacob Keller wrote:
>
> > Dear Crystallographers,
> >
> > Does anyone know of a bioinformatics counterpart of ccp4? It seems
> > like there should really be such an entity, so that folks would not
> > have to write scripts, reinventing the wheel all of the time. I am
> > trying right now to manipulate some sequences into various forms, and
> > I was imagining a "moleman" homolog for bioinformatics (perhaps
> > seqman....?).
> >
> > Regards,
> >
> > Jacob Keller
> >
> > *******************************************
> > Jacob Pearson Keller
> > Northwestern University
> > Medical Scientist Training Program
> > Dallos Laboratory
> > F. Searle 1-240
> > 2240 Campus Drive
> > Evanston IL 60208
> > lab: 847.491.2438
> > cel: 773.608.9185
> > email: [EMAIL PROTECTED]
> > *******************************************
> >
> >
>
>
> --
> *************************************************************************
> Dr Claudine MAYER
> MCF Université Paris 6
> LRMA Equipe 12 UMR S 872
> Laboratoire de Bactériologie (5ème étage gauche)
> Faculté de Médecine PITIE-SALPETRIERE
> 91 bd de l'Hopital
> 75634 PARIS Cedex 13
> tel : 01 40 77 95 56
> fax : 01 45 82 75 77
> mobil: 06 07 23 51 16
> [EMAIL PROTECTED]
> *************************************************************************
>
>
>
>
--
Mark BROOKS
Telephone: 0169157968
Fax: 0169853715
INSTITUT de BIOCHIMIE et de BIOPHYSIQUE MOLECULAIRE et CELLULAIRE
UMR8619 - Bât 430 - Université de Paris-Sud
91405 ORSAY CEDEX
