blast frontend?

[Peter Rice]

Guy Bottu wrote:
> An easy way to integrate applications under EMBOSS is certainly welcome.
> Parsing the ACD file and writing a command line is however not enough.
> It should be possible to take sequences and other data in EMBOSS
> style and pass them over in the appropriate format to the application.

This is where things get just a little complicated. We need to convert, for
example, the input sequence into a format blast can use. Fortunately a
simple conversion to FASTA format will work for most applications (either
directly, or by piping in the output of seqret ... though if it is from
stdin a little care may be needed).

A list of possible third party applications would be helpful. blast and
fasta as starters I assume.

-- 
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Peter Rice, LION Bioscience Ltd, Cambridge, UK
peter.rice at uk.lionbioscience.com +44 1223 224723