Lecture

Learning objectives

By the end of this lesson, we should understand what is principal components analysis and how to apply it to our spatial transcriptomic datasets.

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Hands-on Component

Our in-class hands-on component will involve analyzing our spatial transcriptomics dataset using principal components analysis to create a data visualization.

We will also begin making multi-panel visualizations.

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Class Notes

Prof. Fan’s whiteboard notes from class: genomic-data-visualization-Lesson_5.pptx (click to download)

Prof. Fan’s code from class: code-lesson-5.R (click to download)

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Homework Assignment

Make a new data visualization of your spatial transcriptomics dataset with a minimum of 2 panels using the dimensionality reduction approaches we have been learning about in class.

Additional details: genomic-data-visualization-HW_2.pptx (click to download)

Use the same process from HW1 for what is expected and how to submit your homework to the folder hw2/.