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Course

Repository for course files

Session 1

• Galaxy
  • Introduction
  • Transcriptomics
    • Data loading
    • Quality control
    • Read trimming
    • Alignment
    • Counting features
    • DESeq2

Session 2

• R & RStudio
  • Download and install
  • Using R notebooks
  • Introduction to R and Tidyverse

Session3

• DESeq2 - RStudio
  • Reading in data
  • Experimantal design
  • Normalisation
  • Differential expression

Session 4

• Visualising DESeq2 results
  • ggplot2
    • PCA plots
    • Dispersion plots
    • Heatmaps
  • Contrasts
    • Volcano plots
    • MA plots

Session 5

• Pathway analysis
• Gene Ontology analysis