Training

The aim of this course is to familiarise participants with data analysis methodologies and provide hands-on training on the latest analytical approaches. Lectures will give insight into how biological knowledge can be generated from high-throughput sequencing experiments and illustrate different ways of analyzing such data. Practicals will consist of computer exercises that will enable the participants to apply statistical methods to the analysis of sequencing data under the guidance of the lecturers and teaching assistants.

During this course you will learn about:

• High-throughput sequencing technology
• Quality control of raw reads
• Considerations on experiment design for variant calling and RNA-seq
• Read alignment to a reference genome
• File format conversion and processing
• Methodologies for variant calling
• Quantification of expression and differential expression analysis and differential exon usage: R, DESeq, DEXSeq
• Single cell RNA-seq analysis

After this course you should be able to: 

• Understand the advantages and limitations of the high-throughput assays presented
• Assess the quality of your datasets
• Compare and apply appropriate short read aligners
• Perform variant calling analysis
• Perform alignment and quantification of expression for RNA-seq datasets
• Understand the challenges of single cell sequencing analysis