Difference between revisions of "InterMine Workshop - GMOD Europe 2010"
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Revision as of 22:30, 7 September 2010
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__NOTITLE__
InterMine is an open source system for building biological data warehouses with a powerful web interface and query API. See FlyMine or ModMine for examples.
It can integrate data from many common biological formats and is easy to extend to include your own data. Parsers are included to load data from Chado, Ensembl, UniProt, KEGG, PubMed, TreeFam, GFF3, FASTA, BioPax and many others.
The web application works out of the box for querying any data is easily customisable. It provides a custom query builder, template queries for creating simple 'canned queries', upload and operations on lists, graphical and statistical widgets for analysing lists of data and MyMine accounts for saving user data.
The Workshop - 15th September 2010
The one day (9:30-17:00) workshop will be a hands-on guide to setting up a new InterMine warehouse, integrating data using existing parsers and writing a custom parser in Perl or Java to add new data. We will deploy and configure the web application and use it to run some example queries. We will also run queries using the REST web service API.
The workshop is intended for software developers, some experience with databases and Perl or Java would be useful.
This workshop is a part of GMOD Europe 2010, a four day event including the September 2010 GMOD Meeting and a BioMart Workshop. GMOD Europe 2010 is being held in Cambridge UK.
Registration
Registration is free, but required, as space is limited. Please see the GMOD Europe 2010 page for a link to the registration form. You may register for multiple events, or just the InterMine workshop.
Sponsors
This event is sponsored by the Cambridge Computational Biology Institute and the School of Biological Sciences Bioinformatics Training Facility. The CCBI is set up to bring together the unique strengths of Cambridge in medicine, biology, mathematics and the physical sciences. Its aim is to create a centre of excellence in research and teaching and to promote collaborations both within the Cambridge area and beyond. The Bioinformatics Training Facility organises practical training for both undergraduates and postgraduates. The vast majority of their postgraduate events are open and free to all who might benefit.
CCBI provided copious organizational and logistical support for this event. The Bioinformatics Training Facility is generously providing all coffee, tea, and break snacks at no charge. Please thank Gos Micklem, Richard Smith, Shelley Lawson, and Dave Judge profusely every time you see them.
Lodging and Other Logistics
See the Logistics section on the GMOD Europe 2010 page for information.
