Applied Sequence Analysis
Sandro Andreotti
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Goals:
Students will be able to solve a variety of bioinformatics analysis tasks. They have a broad knowledge on available software and are able to combine them in complex analysis workflows - using a workflow management system - with a strong focus on reproducibility and portability.
Course structure:
After an introduction to a workflow management system, students will independently develop increasingly complex analysis pipelines for typical bioinformatics problems such as
- genome assembly, annotation, comparisons, phylogeny,...
- differential gene expression analysis
- metagenomic analysis
All steps, from quality control and pre-processing to statistical analysis, will be considered and implemented using existing software. It is also ensured that the implementations are reproducible, portable and scalable.
By the end of the course, you will be able to develop solutions to complex bioinformatics problems, think about possible pitfalls and react to them. You will also have a good overview of existing programs for different applications and know how to use/adapt some tools for other purposes. In addition, you will have mastered the standard file formats associated with sequence data, genomes, annotations, variant calling, etc., and will have developed a feel for working with (realistically) large data sets.
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13 Class schedule
Regular appointments
Goals:
Students will be able to solve a variety of bioinformatics analysis tasks. They have a broad knowledge on available software and are able to combine them in complex analysis ... read more