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In silico Laboratory Workflows (Bioinformatics Web Services)

Friday November 07, 2008


Data analysis by traditional methods is done by a researcher using several tools often available through the Internet. However, the user faces data conversion, copy-paste, or interactive waiting time issues when accessing diverse web sites. Additionally, the sequence of events or analysis tools might require repetitive tasks. This leads to the idea of automated "workflows" that could be reused by other researchers. This requires adaptation both for the service provider and the end-user.

A current trend on the side of service providers is to use Web Services technologies to achieve the aim of easy data exchange. In particular, this technology provides standardization and programmatic access to databases and tools allowing for automated design of analysis pipelines.

This course emphasizes the use of Web Services in order to build biological analysis pipelines (i.e., Bioinformatics workflows).

Requirements:
No UNIX or programming skills required.
Basic bioinformatics tools and database knowledge is useful.

 

Teacher:
Laurent Falquet (SIB)
Heinz Stockinger (SIB)

 

Location:
reading room of the Genopode Building (Quartier Sorge, 1015 Dorigny)

 

 

Time Topic Speakers
09:00 Introduction L. Falquet
09:30 Web Services (XML/SOAP/REST/HTTP) H. Stockinger
10:15 Coffee Break  
10:45 Demo SOAPUI H. Stockinger
11:00 Workflows + Demo Taverna L. Falquet
12:00 Lunch  
13:00 Practicals Taverna
(click the "login as a guest" button)
Staff
15:30 Coffee Break  
16:00 Exam  

 

Registration is closed


Participants:

(9 submissions)

Status Firstname Lastname Departement Email
PhD student
Nils
Arrigo
EBOLAB - UNINE
PhD student
Frederic
Bastian
DEE/Robinson-Rechavi
PhD student
Koua
Dominique
SIB/PIG
Post-doc
Vidhya
Jagannathan
DEE/Robinson Rechavi
Other
Sébastien
Moretti
SIB/EMBnet
PhD student
Barbara
Piasecka
DEE/Robinson-Rechavi
Other
Sylvain
Pradervand
DAFL
PhD student
Raphael
Rytz
CIG/Benton
PhD student
Romain
Studer
DEE/Robinson-Rechavi

 

 

Latest update 2008-11-07
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