Hi Martin Petr,
Something else that is important is to implement an interface data
structure that allows for more customizable Alignment outputs. At the
moment our two alignment algorithms (SmithWaterman and NeedlemanWunsch)
both print each pair-wise alignment in a Blast-like format. However, as
sometimes it would be nice to have some renderer that lays out the
output, the alignment should not be printed anymore but passed to the
renderer, which is an interface and can therefore be implemented in
several ways. Depending on the implementation, one would receive an HTML
document or the current Blast-like output or something different. Could
this be interesting to you?
Cheers
Andreas
--
Dipl.-Bioinform. Andreas Dräger
Eberhard Karls University Tübingen
Center for Bioinformatics (ZBIT)
Sand 1
72076 Tübingen
Germany
Phone: +49-7071-29-70436
Fax: +49-7071-29-5091
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