[Biojava-l] SVDSuperimposer

[Andreas Prlic]

Hi Michal,

The SVD superimposer actually does the same Singular Value
Decomposition in both BioJava and BioPython. The difference is that
BioJava also contains a complete alignment algorithm that can
calculate a structure alignment, if the region of similarity between 2
proteins is not known a priori.

See also here:
http://biojava.org/wiki/BioJava:CookBook:PDB:align  and
http://biojava.org/wiki/BioJava:CookBook:PDB:aboutalign

Andreas

On Thu, May 7, 2009 at 5:24 AM, Michal Lorenc <m.t.lorenc at wp.pl> wrote:
> Hello Andreas,
> SVDSuperimposer from BioPython works only with proteins which have the same
> length, but in BioJava it does not matter.
>
> Do you published how SVDSuperimposer in BioJava works or do you know where
> could I found more information?
>
> Thank you in advance.
>
> Best regards,
>
> Michal
>