[Biopython] Biopython Digest, Vol 147, Issue 13

[Björn Johansson]

Hi,

The pydna package ( https://pypi.python.org/pypi/pydna/ )
has pcr functionality.

have a look at the documentation

http://pydna.readthedocs.org/en/latest/pydna.html#module-pydna.amplify

cheers,
Bjorn

On Sun, Mar 29, 2015 at 1:00 PM, <biopython-request at mailman.open-bio.org>
wrote:

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> Today's Topics:
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>    1. Determine thermocycler sequence for PCR (Horea Christian)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Sat, 28 Mar 2015 23:20:52 +0100
> From: Horea Christian <h.chr at mail.ru>
> To: biopython at mailman.open-bio.org
> Subject: [Biopython] Determine thermocycler sequence for PCR
> Message-ID: <1427581252.22280.12.camel at mail.ru>
> Content-Type: text/plain; charset="utf-8"
>
> Hi, do you guys know any good literature reference that provides a
> reliable equation to determine the ideal step temperatures and durations
> for a PCR given the primers and the amplicon?
>
> I see annealing temps can be calculated with biopython via
> SeqUtils.MeltingTemp, which is nice, but it would be even greater if we
> could provide assistance with designing more of the PCR protocol. I am
> asking this also because I have a set of new primers over here which
> likely need a new thermocycler protocol, and all I found via google was
> very vague.
>
> BEst,
> Christian
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-- 
______O_________oO________oO______o_______oO__
Björn Johansson
Assistant Professor
Departament of Biology
University of Minho
Campus de Gualtar
4710-057 Braga
PORTUGAL
www.bio.uminho.pt
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