[Biopython] biopython mashup simmilar to lasergene

[Matt Karikomi]

this is exactly what i had in mind as far as a software development model
and the implementation of the aforementioned modules.  my current work is
less genome-wide exploration (i am interested in doing more of this in the
future) and more just cloning/recombineering (conventional knockouts and
such).  of course the extensibility of Galaxy means it can be made to handle
anything in the way of analysis and manipulation.

On Thu, Aug 13, 2009 at 5:56 AM, Peter <biopython at maubp.freeserve.co.uk>wrote:

> On Thu, Aug 13, 2009 at 3:10 AM, Matt Karikomi<mattkarikomi at gmail.com>
> wrote:
> > i use the lasergene suite to manage molecular cloning projects.
> > in projects like this, the visual presentation of both data and
> > workflow history is crucial.  it seems like the GUI of this software
> > suite could be recapitulated by a mashup of modules from bioperl
> > and/or biopython while at the same time providing a rich API which
> > will never exist in lasergene.
> > has there been any attempt to mask the powerful script-dependent
> > functionality of these open-source modules in some form of GUI?  i am
> > envisioning something like the [web based] Primer3 Plus interface to
> > the C implementation of Primer3 (obviously wider in scope).  sorry if
> > this is the wrong list (please advise).
> > thanks
> > matt
>
> It sounds a bit like you want a work flow system, something like
> Galaxy, which can act as a GUI to command line tools (including
> BioPerl and Biopython scripts). Galaxy is actually written in Python:
> http://galaxy.psu.edu/
>
> Peter
>