Overview

Transcriptomics 3: Visualising

Published

17 December, 2024

This week we cover how to visualise the results of your differential expression analysis. The independent study will allow you to check you have what you should have following the Transcriptomics 2: Statistical Analysis workshop and Consolidation study. It will also summarise the the methods and plots we will go through in the workshop. It will also explain how to write the methods for the analyses with have conducted. In the workshop, we will learn how to carry out and plot a Principle Component Analysis (PCA) as well as how to create a nicely formatted Volcano plot.

The plots you have by the end of this week will be suitable for including in your report.

We suggest you sit together with your group in the workshop.

Learning objectives

The successful student will be able to:

  • verify they have the required RStudio Project set up and the data and code files from the previous Workshop and Consolidation study
  • perform a PCA and understand how to interpret them
  • create a volcano plot and understand how to interpret them
  • write the methods for the analyses they have conducted

Instructions

  1. Prepare

    1. 📖 Read what you should have so far
    2. 📖 Read about concepts in PCA and volcano plots
    3. 📖 Read about how to write the methods for the analyses you have conducted

  2. Workshop

    1. 💻 Perform and plot a PCA

    2. 💻 Visualise all the results with a volcano plot

    3. 💻 Look after future you!

  3. Consolidate

    1. 💻 Use the work you completed in the workshop as a template to apply to a new case.

References