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Hands-on training at EBI - Programmatic access in Perl: webservices & work flows

Course Summary
Course DetailsTitle: Programmatic access in Perl: webservices & work flows
Date: 8-11 September 2008
Venue: Hinxton, Cambridge, UK
Course Champions: Hamish McWilliam & Phil Jones
Organisers: James Watson & Vicky Schneider
Admin Support: Alison Barker & Janet Copeland
Registration Deadline: Monday 11 August 2008

About this Course

This course will give you the skills to leverage webservice technology to access and manipulate bioinformatics data resources and tools. You will start with simple scripts accessing individual services and then build upon this to create work flows to solve more complex problems in a reusable manner.

Participants will be exposed to open standards such as Simple Object Access Protocol (SOAP); the Distributed Annotation System (DAS); REST services and the BioMart web service. Several examples of specific web services will be included, covering programmatic access to both databases and tools at the EBI.

Topics include

  • Introduction to the EBI and Webservices
  • Rest and SOAP; application to EBI services (e.g. OLS, PICR, see http://www.ebi.ac.uk/Tools/webservices/)
  • DAS
  • BioMart and Biomart Webservices
  • Workflows: TAVERNA.

Course requirements

Participant must have competence in Perl programming. Although no experience in webservices program is expected.

The training is free, however we need to charge participants an administration fee of £25 per day.
Administration fee for this course is £75.

Registration Closed.

Trainers


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Vicky Schneider
Vicky
Schneider

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James Watson
James
Watson

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Hamish McWilliam
Hamish
McWilliam

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Phil Jones
Phil
Jones

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Samuel Kerrien
Samuel
Kerrien

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Andy Yates
Andy
Yates

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Janna Hastings
Janna
Hastings

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Andy Jenkinson
Andy
Jenkinson

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Syed Haider
Syed
Haider

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Bert Overduin
Bert
Overduin

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Alan Horne
Alan
Horne

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Sharmila Pillai
Sharmila
Pillai

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Program Contents


Time Topic
Day 1 - Mon 8th Sep
12:00 - 13:00 Registration
13:00 - 13:15 Safety and Welcome (Vicky Schneider, James Watson)
13:15 - 13:35 Overview of EBI (Vicky Schneider, James Watson)
13:35 - 14:00 Introduction to webservices at EBI (Hamish McWilliam)
14:00 - 15:00 Technical intro to webservices (External Services)
15:00 - 15:15 Coffee/Tea
15:15 - 17:15 Hands On : Running Webservices (Hamish McWilliam)
17:15 End of day
Day 2 - Tue 9th Sep
09:30 - 11:00 OLS/PICR + hands-on (Phil Jones)
11:00 - 11:15 Coffee/Tea
11:15 - 12:15 UniProt + hands-on
12:15 - 13:15 Lunch
13:15 - 15:00 IntAct + hands-on (Samuel Kerrien)
15:00 - 15:15 Coffee/Tea
15:15 - 17:15 ChEBI + hands-on (Janna Hastings)
17:15 End of day
Day 3 - Wed 10th Sep
9:30 - 10:00 Introduction to BioMart/Ensembl (Bert Overduin)
10:00 - 10:30 Biomart as a service (Syed Haider)
10:30 - 10:45 Coffee/Tea
10:45 - 11:45 BioMart/Ensembl hands-on session (Syed Haider)
11:45 - 12:45 Integr8 + hands-on (Alan Horne/Andy Yates)
12:45 - 13:45 Lunch
13:45 - 14:45 Literature services + hands-on (Sharmila Pillai)
14:45 - 15:45 ArrayExpress + hands-on
15:45 - 16:00 Coffee/Tea
16:00 - 17:00 ArrayExpress continued
17:00 - 17:15 Questions
17:15 End of day
Day 4 - Thu 11th Sep
09:30 - 10:30 DAS + hands-on (Andy Jenkinson)
10:30 - 10:45 Coffee/Tea
10:45 - 13:00 Integration, workflows and open-ended problem session (All trainers)
13:00 End of day








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