[Biopython-dev] Genbank structured comments

[Peter Cock]

Good question...

e.g. http://www.ncbi.nlm.nih.gov/nuccore/291609868
and http://www.ncbi.nlm.nih.gov/nuccore/FJ966082

It almost makes me wonder if that should have top level
keys of MIENS-Data and FluData - or is that too nested?

Peter

On Thu, Sep 10, 2015 at 4:37 PM, Brian Osborne <bosborne11 at verizon.net> wrote:
> Peter,
>
> Another question, maybe the last one: what do we do what the “header” and “footer” strings, things like “FluData”, "GISAID_EpiFlu(TM)Data”, and “Assembly-Data”?
>
> They could also be keys in the dict, of course. Values are ‘’?
>
> Thanks again,
>
> Brian O.
>
>
>> On Sep 10, 2015, at 1:25 AM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
>>
>> On Wed, Sep 9, 2015 at 11:37 PM, Brian Osborne <bosborne11 at verizon.net> wrote:
>>> Chris,
>>>
>>> This is the documentation I’m familiar with, but there may be more:
>>>
>>> http://www.ncbi.nlm.nih.gov/genbank/structuredcomment
>>>
>>> Peter, I can definitely separate these using ‘comment’ and
>>> ‘structured_comment’ keys in the record.annotations dict.
>>>
>>> If there’s no structured comment in the Genbank file, would
>>> there simply be an empty dict in the SeqRecord?
>>>
>>> E.g.
>>>
>>>>>> record.annotations[‘structured_comment']
>>> {}
>>
>> That makes sense - equally no entry in the annotation dictionary
>> would be reasonable.
>>
>> Peter
>