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Classroom Contents
MPG Primer: Understanding Single Cell ATAC-Seq Data Analysis (2024)
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- 1 Introduction
- 2 What is ATAC
- 3 Example
- 4 Broadness of the peak
- 5 Combinatorial indexbased approach
- 6 Workflow overview
- 7 Adapter training
- 8 Fragment files
- 9 Cell QC
- 10 TSS Enrichment Score
- 11 TSS Enrichment Score Visualization
- 12 Metric Distribution
- 13 Doublets
- 14 Doublet Detection
- 15 Feature Cell Count
- 16 Dimensionality Reduction
- 17 TFIDF
- 18 Matrix Factorization
- 19 Clustering
- 20 Hierarchical clustering
- 21 Visualization
- 22 downstream analysis
- 23 popular tools
