Programmatic access in Perl: webservices & work flows
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.
| 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 |
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.
Course materials are available at the following link:
/training/sites/ebi.ac.uk.training/files/materials/2008/course_080908_perlwebservices.zip