DAS Workshop 2011
DAS is an important system for exchanging and viewing of biological data, with more than 1300 DAS sources available world wide. Several different projects are working on applications and resources to provide DAS support. The purpose of this meeting is to improve communication between these projects and let interested people learn what they can do with DAS and how to do it.
Is it right for me?
This workshop aims to cater to a number of differing backgrounds so all days on the workshop are optional. To make the most of having many DAS experts in one place there is an extra day this year for break off groups to push forward with their DAS projects. People new to DAS will likely want to attend the first day, conversely experts may decide only to attend the 2nd and 3rd day.
What will I learn?
- what you can do with DAS
- how to talk to a DAS server
- how to set up your own servers
What will it cover?
- The first day is a practical day where you can learn how to work with DAS.
- What DAS commands look like
- How to request via Perl / Java
- How to set up a DAS server
- How to get a list from available servers from the DAS registry
- The second day is the first of the DAS client developers days where developers present their DAS related applications, websites and discuss new ideas. Each participating group is invited to give a 15 min presentation. There is time for a short discussion after each talk. Please contact Jonathan Warren if you want to give a presentation on this day.
- Present the progress over the last year
- Find synergies
- See if/how interoperability can be improved
- Discuss possible future extensions to DAS
- The final day will work on pushing forward with specific projects/aspects of DAS. Please suggest subjects when you register by sending an email to Jonathan Warren
| Time | Title | Speaker | Resources |
|---|---|---|---|
| 8:45 - 9:30 | Departure from the Travelodge Cambridge Leisure Park at 08:45 hrs to Campus. | ||
| 9:30 - 09:50 | Coffee is served outside the training room | ||
| 09:50 - 10:00 | Welcome and Introduction to the Workshop | Jonathan Warren | |
| 10:00 - 10:20 | DAS - Introduction/Overview | Andy Jenkinson | Introduction Technical Introduction |
| 10:20 - 10:35 | The DAS Game | Rafael Jimenez | The DAS Game |
| 10:35 - 11:25 | Hands-on tutorial: using DAS software, 10 minute introduction of some DAS implementations (Bernat) | Bernat Gel, Thomas Down, Jose Villavaces | Implementations. PPT Creating DAS sources from GFF files supplied using easyDAS (Bernat), Viewing DAS sources using Dalliance (Thomas) PDF-or- Dasty3 (Jose) PDF |
| 11:25 - 12:15 | Hands-on programming tutorial: Creating a custom DAS source | Gustavo, Andy | 10 minute introduction to DAS servers, MyDAS -or- ProServer |
| 12:15 - 13:15 | Lunch break | ||
| 13:15 - 14:50 | Tutorial - DAS servers continued | Andy Jenkinson and Gustavo Salazar | Perl(ProServer) and Java(MyDAS) |
| 14:50 - 15:10 | Hands on Tutorial The DAS registry: Short introduction talk then hands on tutorial | Jonathan Warren | DAS Registry Tutorial |
| 15:10 - 15:30 | Cofee Break | ||
| 15:30 - 17:15 | Hands-on programming tutorial: DAS client libraries, 10 minute introduction | Andy, Rafael, Leyla, Jose, Bernat | Bio::Das::Lite-or- JDAS -or- JSDAS. Each will cover sources, sequence & features using the same examples |
| 17:30 | Departure from Campus to Cambridge Travel Lodge and Leisure Park at circa 17:30 hrs. | ||
| 19:00 | Dinner at Browns directions from Travel lodge The Private Dining Room 7.00 pm for 7.30 pm sit down. There is a large bus for this journey at 17.30 and so we encourage campus people who would normally use the campus bus to take the workshop bus. Browns is approx 25 minute walk from the travel lodge we are currently suggesting a pub stop at The Snug on the way. People will be responsible for getting back to their hotel or home after the restaurant. | ||
Day 2
Preliminary schedule where the order and content may still change considerably.
| Time | ProjectName | Speaker | Presentation |
|---|---|---|---|
| 8:45 - 9:30 | Departure from the Travelodge Cambridge Leisure Park at 08:45 hrs to Campus. | ||
| 09:30 - 10:00 | Arrival - Tea, Coffee. | ||
| 10:00 | Opening talk | Tim Hubbard | PDFVideo |
| 10:20 | Dalliance- a new interactive DAS client | Thomas Down | HTML SlidesVideo |
| 10:40 | DAS search | Gustavo Salazar | PPT, BTNVideo |
| 11:00 | Short break | [] | |
| 11:20 | easyDAS: a hosted solution for DAS server creation | Bernat Gel | BTNVideo |
| 11:40 | Update on the DAS Registry | Jonathan Warren | PPTVideo |
| 12:00 | WebApollo: Extending JBrowse to support DAS and genome annotation editing | Gregg Helt | PPTX, PDFVideo |
| 12:15-13:30 | Lunch break | ||
| 13:30 | EBI Search | Andy Jenkinson | PPTXVideo |
| 13:50 | Dealing with Personal Genomes using DAS | Manuel Corpas | [] |
| 14:10 | Dasty update | Jose Villaveces | PPTVideo |
| 14:30 | EMBOSS as a DAS client | Peter Rice, Mahmut Uludag | PPTVideo |
| 14:50 | Jalview Update | James Procter | PDFVideo |
| 15:10-15:30 | coffee break | ||
| 15:30 | Setting up a BAM based DAS source in GBrowse experience. | Frank Schwach | PDF, Video |
| 15:50 | Authentication and Authorization for writeback and secure DAS data sources | Gustavo and Andy | PPT, BTNVideo |
| 16:10 | Discussion/talk about activity organisation of next day - preliminary groups and chairs of groups | [] | |
| 16:30 | |||
| 16:50 | |||
| 17:10 | Bus Leaves for Cambridge Travel Lodge | ||
The registration for this workshop is free and includes lunches, tea and coffee for the first two days, plus an evening meal in a restaurant on the first evening. You will need to pay for your own travel and accommodation.
We are recommending staying at the Travelodge in Cambridgeand coaches will be provided to and from the campus and the restaurant, please ensure that you book your accommodation as soon as possible due to limited spaces at the Travelodge. Participants that are not able to catch the coach from the Travel- lodge will need to make their own arrangements for travel.
Registration Closed