[Bioperl-l] HTML writers

[Brian Osborne]

Nathanael,

I don't think there's a module tailor-made for this, no, but you could make
a script in a few minutes. Get the HTML in question, replace each relevant
section with a variable, read the fasta file into a Seq object, use the
appropriate Bio::Seq method to write to the appropriate variable. Done.
Well, I lied, you'd have to spend a few more minutes formatting some
sections if you wanted it picture-perfect.

There's a little section at the end of the Bio::Seq documentation that talks
about how fasta "fields" map to Genbank fields:

http://doc.bioperl.org/releases/bioperl-1.2/Bio/Seq.html

Brian O.

-----Original Message-----
From: bioperl-l-bounces at bioperl.org [mailto:bioperl-l-bounces at bioperl.org]On
Behalf Of nkuipers
Sent: Friday, February 07, 2003 2:44 PM
To: bioperl-l at bioperl.org
Subject: [Bioperl-l] HTML writers

Are there bioperl modules that will convert, say, a fasta flat file into a
genbank-formatted .html file?  I see the Bio::Tools::Blast::HTML and
Bio::SearchIO::Writer::HTMLResultWriter namespaces, but these don't seem to
me
to deal with a straight fasta flat file (not generated by a FASTA search).
Any ideas?

Thanks,

Nathanael

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