EMBL-ABR/GOBLET hands-on training RNA-seq: variant analysis

EMBL-ABR and GOBLET will be delivering a workshop for hands-on training for RNA-seq variant analysis from the 14th to 15th of November 2016.

Workshop outline

Over one and a half days participants will be given a hands-on introduction to RNA-seq data analysis: from raw sequence reads to differentially expressed genes – introducing the theory, analysis tools and file formats involved. The program consists of alternating short lectures and hands-on exercises.

Participants will learn and practise how to:

•check the quality of reads with FastQC and PRINSEQ

•remove bad quality data with Trimmomatic

•align RNA-seq reads to the reference genome with TopHat2

•visualise aligned reads in genomic context using the Chipster genome browser

•perform alignment level quality control using RseQC and SAMtools

•quantify expression by counting reads per genes using HTSeq

•check the experiment level quality with PCA plots and heatmaps

•analyse differential expression with DESeq2 and edgeR

•take multiple factors (including batch effects) into account in differential expression analysis.

Who should attend?

Life scientists who are planning to apply RNA-seq analysis in their research. This course is suitable also for those researchers who do not plan to analyse data themselves, but who need to understand the concepts in order to discuss with bioinformaticians.

Registration opens on the 15th of August!

More information can be found here: https://www.embl-abr.org.au/gobletnov2016/

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