Thanks Manuel, that's exactly the sort of reply we are hoping for.
It's great if people want to publicise what they are doing on the list.
In addition I should add that if people wish to distribute 23AndMe
data via DAS I have developed a very simple MyDAS adapter for this
purpose that comes with the current myDAS download (http://code.google.com/p/mydas/
).
Comprehensive instructions for setting up the database and uploading
the data file can be found here: http://biodasman.wordpress.com/2011/11/04/how-to-create-a-genotype-database-for-use-as-a-das-source/
The configuration for connecting to this database is also in MyDAS and
the blog.
Obviously this isn't an automatic set-up via a pretty interface, but
it's relatively simple for anyone with a degree of technical ability
to do in the mean time.
On 17 Nov 2011, at 17:11, Manuel Corpas wrote:
Dear Jonathan,
I hope you do not mind me copying the DAS list in this email, as we
would be very keen to gather interest in the community regarding DAS
applications to whole genomes.
We are interested in exploring DAS in the context of genomic variants
(SNPs, indels, CNVs) from personal genomes plus their integration with
relevant sources (genes, variation data, phenotypes).
Currently we have done a lot of work with 23andMe (whole-genome)
genotypes but now we are expecting to extend our efforts further to
exome data. A critical tool we are currently missing is one that
allows automatic creation of DAS sources via an API directly from bed
format (used by 23andMe) or vcf (1000genomes).
Anyone interested in discussing these topics please let me know.
Kind regards,
Manuel
Manuel Corpas, PhD
Tel: +44.122349.2372
Web: http://manuelcorpas.com/about/
Twitter: @manuelcorpas
On 17 November 2011 12:11, Jonathan Warren <[email protected]> wrote:
Hi
As the 2012 DAS workshop is coming up at the end of February we
would like
to hear from people using DAS.
We would be really grateful to receive just a short email from
anyone using
DAS or developing DAS with a brief summary about their project and
how DAS
fits in, especially if you have not spoken at the DAS workshops at
any time.
Please also say if you would be interested in giving a short
presentation at
the workshop in February even if you are not sure if you could make
it.
Previous years the presentations have been 15 minutes with 5
minutes for
questions - however this year we intend to be more flexible and so
if you
would prefer to give a "lightning talk" of just 5 minutes to update
people
or give them a brief overview that will be fine. Links to the
previous years
talks can be found here http://www.biodas.org/wiki/DASWorkshop2011#Day_2
I must emphasise - please give us a summary even if you are not
interested
in giving a talk as we would like to know what is going on out
there and we
promise not to hound you to give a talk :)
Thanks in advance
The Sanger/EBI DAS people.
Jonathan Warren
Senior Developer and DAS coordinator
blog: http://biodasman.wordpress.com/
[email protected]
Ext: 2314
Telephone: 01223 492314
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The Wellcome Trust Sanger Institute is operated by Genome
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Road,
London, NW1 2BE._______________________________________________
DAS mailing list
[email protected]
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Jonathan Warren
Senior Developer and DAS coordinator
blog: http://biodasman.wordpress.com/
[email protected]
Ext: 2314
Telephone: 01223 492314
--
The Wellcome Trust Sanger Institute is operated by Genome Research
Limited, a charity registered in England with number 1021457 and a
company registered in England with number 2742969, whose registered
office is 215 Euston Road, London, NW1 2BE.
_______________________________________________
DAS mailing list
[email protected]
http://lists.open-bio.org/mailman/listinfo/das
