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BIOF 045 | Next Generation Sequencing Data Analysis
July 12, 2021 @ 9:00 AM – July 16, 2021 @ 5:00 PM
This course will introduce the basics of next generation sequencing (NGS) data analysis. We will introduce NGS methods and platforms, bioinformatics tools and standards, and data analysis workflows, specifically for DNA-seq (variant analysis) and RNA-seq (transcriptome analysis). The lectures will introduce common software libraries and algorithms used in the bioinformatics community. During the hands-on training sessions, we will perform alignment and analysis of NGS data from scratch using standard software libraries and pipelines.
OBJECTIVES: Participants will start with a general introduction to working in a linux environment and running command-line tools. We will learn the common file formats: fasta, fastq, SAM, BAM, VCF, GTF. Next, we will walk through: DNA-Seq variant calling analysis; RNA-Seq analysis with downstream analysis in R. Finally, we will touch on data retrieval and best practices for making your analysis readable and reproducible.