MPG Primer: Understanding Single Cell ATAC-Seq Data Analysis (2024)

MPG Primer: Understanding Single Cell ATAC-Seq Data Analysis (2024)

Broad Institute via YouTube Direct link

Introduction

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1 of 23

Introduction

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Classroom Contents

MPG Primer: Understanding Single Cell ATAC-Seq Data Analysis (2024)

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  1. 1 Introduction
  2. 2 What is ATAC
  3. 3 Example
  4. 4 Broadness of the peak
  5. 5 Combinatorial indexbased approach
  6. 6 Workflow overview
  7. 7 Adapter training
  8. 8 Fragment files
  9. 9 Cell QC
  10. 10 TSS Enrichment Score
  11. 11 TSS Enrichment Score Visualization
  12. 12 Metric Distribution
  13. 13 Doublets
  14. 14 Doublet Detection
  15. 15 Feature Cell Count
  16. 16 Dimensionality Reduction
  17. 17 TFIDF
  18. 18 Matrix Factorization
  19. 19 Clustering
  20. 20 Hierarchical clustering
  21. 21 Visualization
  22. 22 downstream analysis
  23. 23 popular tools

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