Automatic Cell Annotation for Single-Cell RNA-Seq Data - Multiple Reference Strategies in SingleR - Part 2

Automatic Cell Annotation for Single-Cell RNA-Seq Data - Multiple Reference Strategies in SingleR - Part 2

bioinformagician via YouTube Direct link

Study design and goal of the analysis

3 of 13

3 of 13

Study design and goal of the analysis

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Automatic Cell Annotation for Single-Cell RNA-Seq Data - Multiple Reference Strategies in SingleR - Part 2

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  1. 1 Intro
  2. 2 Strategies for using multiple reference datasets for annotation
  3. 3 Study design and goal of the analysis
  4. 4 Fetching 2 reference datasets from celldex package
  5. 5 Annotation strategy 1: Using a combined reference
  6. 6 Visualize results of strategy 1 in a UMAP
  7. 7 Annotation strategy 2: Comparing scores across references
  8. 8 Which reference scored the best for which label?
  9. 9 How to get the markers for each label from individual references?
  10. 10 Combined diagnostic heatmap
  11. 11 Lack of consistency in labels across references
  12. 12 Annotation strategy 3: Using harmonized labels
  13. 13 How to map cell ontology terms to labels?

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