Home/ NGS for evolutionary biologists: from basic scripting to variant calling
NGS for evolutionary biologists: from basic scripting to variant calling
Mon, 2015-11-23 to Fri, 2015-11-27
This course is aimed at PhD students and post-doctoral researchers who are applying, or will apply in the near future, high throughput sequencing technologies and the related bioinformatics tools in their research. The aim of this course is to familiarise the participants with NGS data analysis methodologies and provide hands-on training on the latest approaches.
Lectures will give insights into how biological knowledge can be generated from next-generation sequencing experiments. Practical training will consist of computer exercises that will enable the participants to apply the latest available tools for NGS data handling and combine them in a real workflow with downstream evolutionary analyses, under the guidance of the lecturers and teaching assistants.
This course will provide an introduction to next generation sequencing platforms, data analysis and tools for data quality control, including alignment to a reference sequence, data handling and visualisation, and variant calling and filtering (single nucleotide polymorphisms and structural variants). The course will be delivered using a mixture of lectures and computer based hands-on practical sessions, including group projects to be completed by the participants using the knowledge gained at the course. These will cover the general topics of population structure and admixture, demographic changes and natural selection.
Participants with limited UNIX/Linux and R/Bioconductor experience will be provided with basic understanding of the command-line operations and the foundations of the R programming language on the first day of the course. Participants with some bioinformatics experience will be asked to help through the first day in order to create the collaborative environment needed for the group projects at the end of the course.