[DAS] Genotype MyDAS adapter

[Manuel Corpas]

Hi Jonathan,

thanks, this is really helpful.

Please find in this link my genotype data* should anyone would like to
give it a try with real data:

http://mykaryoview.com/data/son.txt.zip

Manuel

*my genotype data has CC BY-SA 3.0 License: you are able to copy,
distribute and transmit the work as long as you acknowledge the
source.

Manuel Corpas, PhD
Tel:      +44.122349.2372
Web:    http://manuelcorpas.com/about/
Twitter: @manuelcorpas



On 18 November 2011 10:15, Jonathan Warren <jw12 at sanger.ac.uk> wrote:
> 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 <jw12 at sanger.ac.uk> 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/
>
> jw12 at sanger.ac.uk
>
> Ext: 2314
>
> Telephone: 01223 492314
>
>
>
>
>
>
>
>
>
>
> --
>
> The Wellcome Trust Sanger Institute is operated by Genome ResearchLimited, a
>
> charity registered in England with number 1021457 and acompany registered in
>
> England with number 2742969, whose registeredoffice is 215 Euston Road,
>
> London, NW1 2BE._______________________________________________
>
> DAS mailing list
>
> DAS at lists.open-bio.org
>
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>
>
> Jonathan Warren
> Senior Developer and DAS coordinator
> blog: http://biodasman.wordpress.com/
> jw12 at sanger.ac.uk
> 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.
>