Date: November 14, 2014 – November 15, 2016
Venue: VLSCI, Carlton, Australia, 3053
EMBL-ABR and GOBLET join forces to bring Eija Korpelainen workhsop on RNA-seq data analysis to Australia. 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.
Further info and registration here.