[Bioperl-l] BOF

Jason Stajich jason@chg.mc.duke.edu
Mon, 14 Aug 2000 13:50:19 -0400 (EDT)

Welcome back Ewan. :)

My thoughts on some BOF topics.

- Inventory what are people USING bioperl for (maybe even before the BOF),
  and discuss if needs are being met.  Call this "common bioperl uses".

   + Sequence format conversion
   + genbank downloads, 
   + BLAST				

- What do people WANT bioperl to do?
  + Updateable Seq Databases (started as bioperl-db )
  + Annotate sequences from various reports { blast, gene prediction, ...}
  + Address other types of information?

- SeqIO: where are we going with this, do we want to redesign, I like
         BioPython's producer/consumer model, not sure how it would work
         with perl.

- Better out of the box support.  

  Perhaps common functions/uses should be combined
  into a suite or an organized program that allows a user to 
  do things from our list of common bioperl uses.  This provides a user
  with little computer background the ability to jump in and start doing
  simple things.  

As per the Hilmar, Jason, Ewan, and others round table, my schedule is
open at this time, I'll be at BOSC & ISMB so I'm in town from Aug 17 -
23. I leave it up to Hilmar to pick day/time.


On Mon, 14 Aug 2000, Ewan Birney wrote:

> This might not be obvious, but there *will* be a Bioperl 
> Birds-of-a-feather talk on thursday evening at BOSC. I'd like to hear from
> people who are interested in contributing and also in moving the design of
> bioperl ahead/refactoring old bits.
> It is also going to be important to get Hilmar, myself and jason sat
> around the same table sometime over the weekend (others welcome, but it
> might get quite hardcore). Hilmar has the most complicated schedule here,
> so hilmar, if you can suggest at least a time... (I leave on sunday). 
> -----------------------------------------------------------------
> Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
> <birney@ebi.ac.uk>. 
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Jason Stajich
(919)684-1806 (office) 
(919)684-2275 (fax) 
Center for Human Genetics - Duke University Medical Center