[Baypiggies] Proposal for Baypiggies meeting, July 25, 2013
mersenne at gmail.com
Mon Jul 15 09:13:01 CEST 2013
I'd +1 as I love tech medical crossovers, but I'll be out of town. #sadface
On Jul 12, 2013, at 10:44 AM, Tony Cappellini <cappy2112 at gmail.com> wrote:
> > Hello Everyone,
> > Jared Maquire from Counsyl has offered to do a presentation on Python
> for Clinical Genomics, at the July Baypiggies meeting.
> > Since the details of the Python Hack nights are still being worked on, I
> wanted to ensure we have a presentation for July,
> > and to allow extra time to put together a fun session for the Python
> Hack night. We can easily schedule the Python Hack nights
> > in addition to our regular meetings in the future.
> > Vote +1 if you are interested in attending the Python for Clinical
> Genomics presentation in July
> > Python for Clinical Genomics
> > Generally computational biology workflows harken back to ancient days
> when Perl programmers roamed the Earth. Lately though, genomics analysis
> has been moving to Python -- in particular the excellent Pysam library has
> brought the state of the art DNA sequence manipulation tools to the world
> of Python.
> > In this talk I'll demonstrate the basic tools that I use as part of my
> daily work in a Clinical Next-Generation Sequencing company. We use Pysam
> and Pygr to work with the DNA directly, Django to manage our wet lab and
> organize our genetics knowledge, and Numpy and Scipy for developing novel
> assays and for general numerical analysis.
> > We'll work through a live demonstration that takes clinical genetics
> data all the way from the DNA sequencer's output to the final result that
> we share with the patient.
> > Along the way I'll introduce the basic concepts of genomics for a
> computer science audience. If you're a computer scientist or engineer and
> you've ever been curious about making the jump to genomics, the time has
> never been better. Genomics right now is like computers were in 1973 -- a
> huge wave about to break.
> > About Jared Maguire
> > Jared spent the last five years at the Broad Institute of Harvard and
> MIT laying much of the analytical groundwork for the new wave of DNA
> sequencing technologies. During that time he was a senior analyst on key
> projects such as the 1000 Genomes project, which gave him the chance to be
> one of the first people on earth to map out the patterns of genetic
> variation in thousands of whole human genomes.
> > Now he's moved to Counsyl where he's working to help bring the new wave
> of genomics technologies from the research lab into the clinic.
> > About Counsyl
> > Counsyl is a medical genomics startup whose goal is to make the human
> genome practically useful for life-altering decisions. Over the last few
> years, we?ve grown from a Stanford dorm room to become one of the largest
> clinical genome centers in the world. Our pre-pregnancy genetic test is
> now prescribed by physicians for more than 2.5% of all births in the United
> > Thank You
> > Tony
> > _______________________________________________
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> > Baypiggies at python.org
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