[Biopython] parsing gff3 sequence

[Peter Cock]

Hello,

Biopython can read GenBank files directly (e.g. using Bio.SeqIO).
Brad Chapman has some GFF parsing code which integrates
into Biopython: http://biopython.org/wiki/GFF_Parsing

Biopython can be used to draw simple chromosome diagrams, e.g.
http://news.open-bio.org/news/2011/10/chromosome-diagrams-in-biopython/

However, you're interested in circos rather than Biopython.
Could you clarify your question please?

Peter

On Sat, May 30, 2015 at 12:55 PM,  <Atteyet-Alla.Yassin at ukb.uni-bonn.de> wrote:
> I obtained the attached gff3 file using bioperl from a Genbank format and
> want to use it to build chromosome map with circos. I have no experience
> with biopython and want to know: the steps to parse it and the linux command
> which should I use?
>
> (See attached file: bac.gff)
>
>
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