[Biopython-dev] Writing protein records in Swiss-Prot format

Peter Cock p.j.a.cock at googlemail.com
Mon Dec 25 22:23:18 UTC 2017

Thanks for the explanation.

Note I have sometimes needed to *filter* a SwissProt
format file, and you can do this via SeqIO's index
get_raw functionality (grab the original raw record
as a string, and save it to a file as is). There's an
example of this in our Tutorial, see the section
"Getting the raw data for a record":



On Mon, Dec 25, 2017 at 4:05 PM, Adam Sjøgren <asjo at koldfront.dk> wrote:

> Peter writes:
> > I don't recall anyone asking about this, so there doesn't seem to be
> > much need for it. And perhaps because of this, no one has ever
> > written the code to do it. I've only ever needed to read these files.
> >
> > Why do you need Swiss aka SwissProt aka UniProt DAT format
> > output?
> I guess we should just use GenBank format.
> Traditionally (which in this case means: using BioPerl) we have been
> using SwissProt format when writing protein records, so I was just
> trying to do the same in BioPython, without any deeper thought going
> into it :-)
>   Thanks for the reply & merry christmas,
>     Adam
> --
>  "There are forty people in the world and five of them        Adam Sjøgren
>   are hamburgers."                                       asjo at koldfront.dk
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