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 <[email protected]> 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 <[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 > > > > > > > > > > > -- > > 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 > > [email protected] > > http://lists.open-bio.org/mailman/listinfo/das > > > 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
