EnsEMBL API course
March 11-12, 2015
With its popular genome browser and diverse ecosystem of tools the EnsEMBL project is one of the most comprehensive resources within genomics. However, for large-scale bioinformatics analyses, interacting with this data through a website greatly limits its potential for complex and high-throughput analyses.
The aim of the course will be to introduce researchers to the powerful perl-based EnsEMBL API, a programming interface that enables direct access to all data stored within EnsEMBL data bases using well-documented perl modules and classes. You will learn about the internal organization of EnsEMBL resources through discussions of the various databases and their structure. With this knowledge, subsequent tutorials will then focus on how to develop scripts to access and efficiently mine these data – ranging from information about individual genes, genomic regions, variation data and comparative genomics.
This course is aimed at life-sciences/genomics researchers at Swedish universities, from PhD students to senior PIs, who wish to further develop their bioinformatics competence and work on complex genomics datasets and questions. Familiarity with the perl scripting language is an absolute must to be able to follow the course materials. Participants will have to bring their own laptops (ideally running OsX or Linux) and access to the Uppmax compute cluster would be beneficial, but all exercises can be completed locally.
To sign up for the workshop, go here: http://www.scilifelab.se/events/ensembl-api/
- Client: N/A
Manager: Andreas Kähäri
Developer: Adnan Niazi, Agata Smialowska, Anders Larsson, Andreas Kähäri, Andrey Alexeyenko, Anna Johansson, Ashfaq Ali, Bengt Persson, Bengt Sennblad, Bjorn Nystedt, Dag Ahren, Daniel Malmodin, Diana Ekman, Dimitrios Bampalikis, Erik Fasterius, Estelle Wera, Eva Freyhult, Fredrik Levander, Henrik Lantz, Jacques Dainat, Jakub Westholm, Jeanette Tångrot, Jessica Lindberg, Jessica Lindvall, Joakim Bygdell, Johan Nylander, Johan Reimegård, Johan Viklund, John Sundh, Jon Ander Novella, Jonas Hagberg, Jonas Söderberg, Jorrit Boekel, Katarina Truvé, Lokeshwaran Manoharan, Lucile Soler, Magnus Alm Rosenblad, Mahesh Binzer-Panchal, Malin Larsson, Malin Ahlberg, Manfred Grabherr, Marcel Martin, Martin Dahlö, Martin Norling, Mihaela Martis, Mikael Borg, Nanjiang Shu, Niclas Jareborg, Nikolay Oskolkov, Nima Rafati, Nina Norgren, Olga Dethlefsen, Payam Emami, Pontus Freyhult, Pär Engström, Rasmus Ågren, Roy Francis, Rui Benfeitas, Sara Light, Sebastian DiLorenzo, Sergiu Netotea, Stefan Fleischmann, Stefania Giacomello, Thomas Källman, Thomas Svensson, Verena Kutschera, Yvonne Kallberg, Åsa Björklund