Programming course for evolutionary biology

 

Programming course for evolutionary biology

It was really an incredible adventure. Since the beginning, when Katja proposed to organize such a course I was very far to understand this would be such great. It was thanks to Katja, lecturers, TAs and you students.

It was really hard to select students (from 176 applications to decide for 25) and I’m sure we left good students off. It was also hard to conceive all the modules and connect them, but I think, although adjustments are needed, it was really a great experience that we all want to repeat. I hope to see some of my students in that course next year.

I really enjoyed knowing everyone, and I’m thankful to all of you. However, I have to say a personal thanks to the people I invited personally: Tiago Carvalho (TA); Miguel Fonseca (TA); Giovanni (TA and Lecturer); Stuart Baird (Lecturer); Rasmus Nielsen (Lecturer); and Ben Lehner (Speaker). You were all fantastic.

It was my best teaching-organizing experience ever. However, next year will be even better!

 

Social aspects:

Thanks to Volkswagen Foundation for the huge financial support. Thanks to them, this course took 300 euros to each student for 17 days including dinners and accommodation. Some of the students also got a stipend to help on their expenses. So, thanks to the Foundation my personal goal of organizing a course not to have profit but with some social concerns was achieved. Thanks also to lecturers that were extremely kind and very altruistic to teach for free!

 

I hope at least one of the students will use the programming skills they learned.  This is just a starting point, now take it as far as you can!

Leipzig was really a nice city to the this workshop. University, hotel and pubs were really close together and it made everything easier.

Modules and Instructors:

Introduction to Linux
Giovanni Marco Dall’Olio, University Pompeu Fabra, Barcelona, Spain

Introduction to R
Katja Nowick, University Leipzig, Germany

Analysis of next generation sequencing data
David Langenberger, University Leipzig, Germany

Analysis of structural variants
Tomas Marques-Bonet, University Pompeu Fabra, Barcelona, Spain

Analysis of expression data
Katja Nowick, University Leipzig, Germany

Promoter evolution
Annalisa Marsico, Max-Planck-Institute for Molecular Genetics, Berlin, Germany

Statistics & Inference
Stuart Baird, University Porto, Portugal

Introduction to Perl
Sofia Robb, University of California Riverside, USA

Phylogenomics
Rui Faria, CIBIO- University of Porto, Portugal
Rasmus Nielsen, University of California, Berkeley, USA

Ensembl API
Bert Overduin, EMBL – European Bioinformatics Institute, Hinxton, Cambridge, UK

Introduction to databases
Jan Aerts, Leuven University, Belgium

Visualization of scientific data
Jan Aerts, Leuven University, Belgium

Invited speakers

Evolution of behavior
Sarah London, University of Chicago, USA

Evolutionary ecology
Claudia Acquisti, Westfälische Wilhelms-University Münster, Germany

Phylogenomics
Rasmus Nielsen, University of California, Berkeley, USA

Genotype to phenotype mapping
Ben Lehner, Centre for Genomic Regulation, Barcelona, Spain

NGS of non-model organisms
Markus Pfenninger, Biodiversity and Climate Research Center, Frankfurt, Germany

Technical Support

Jens Steuck

Petra Pregel

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