EcoEvo 2015

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===== Master Course Ecology and Evolution: Molecular evolution and Bioinformatics ======
   - **Slides 1:** {{wiki:MasterEcolEvol-1.pdf}}: Introduction and Perl Basics
   - **Slides 2:** {{wiki:Vorlesung-2-SeqEvol.pdf}}: Basic concepts in modeling sequence evolution
   - **Slides 3:** {{wiki:Vorlesung-3-Mapping.pdf}}: Principles of short read mapping
   - **Slides 4:** {{wiki:MasterEcolEvol4.pdf}}: Variant calling
   - **Slides 5:** {{wiki:MasterEcolEvol5.pdf}}: An introduction in WGS denovo assembly 
   - **Slides 6:** {{wiki:MasterEcolEvol6-trees.pdf}}: A primer in phylogenetic tree reconstruction
   - **Slides 7:** {{wiki:MasterEcolEvol7-orthology.pdf}}: Orthology
   - **Slides 8:** {{wiki:MasterEcolEvol8-trees2.pdf}}: Resampling techniques and splits

**Exercises:** [[http://www.cibiv.at/~ingo/Frankfurt/MasterEcolEvol/Main/PerlCourse2.html|Link to the Perl exercises]]

Example scripts generated during the lecture {{wiki:perlvorlagen.tar.gz}}

**General Info:** [[http://www.cibiv.at/~ingo/Frankfurt/MasterEcolEvol/Main/GeneralExercises.html|Link to the main course twiki]]

**Seminar Papers:**   
   - {{wiki:Fan2012.PNAS.pdf}}: Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts
   - {{wiki:Leigh2008a.SystBiol.pdf}}: Testing Congruence in Phylogenomic Analysis
   - {{wiki:Bailey2015.MBE.pdf}}: The Effect of Selection Environment on the Probability of Parallel Evolution
   - {{wiki:Kainer2015.MBE.pdf}}: The Effects of Partitioning on Phylogenetic Inference
   - {{wiki:gabaldon2013.NRG.pdf}}: Functional and evolutionary implications of gene orthology
   - {{wiki:Pombert2015.mbio.pdf}}: The Ordospora colligata Genome: Evolution of Extreme Reduction in Microsporidia and Host-To-Parasite Horizontal Gene Transfer