[Bioperl-l] BioPerl 1.6 and parsing multiple EMBL records

Peter biopython at maubp.freeserve.co.uk
Mon Jan 11 10:55:26 EST 2010


On Mon, Jan 11, 2010 at 3:42 PM, Hotz, Hans-Rudolf <hrh at fmi.ch> wrote:
>
> These entries form the CON data class, see:
> http://www.ebi.ac.uk/embl/Documentation/User_manual/usrman.html#3_4_14
> and they don't contain any sequence information.

I know - GenBank files have a similar system with CONTIG
lines instead of sequences. I was expecting BioPerl to be
able to convert these EMBL files with CO lines into GenBank
files with CONTIG lines.

> If you take the 'expanded' entries from
> ftp://ftp.ebi.ac.uk/pub/databases/embl/expanded_con/release/rel_con_hum_01_r102.dat.gz
> your script will work.

That's a useful tip - thanks.

Peter


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