Introduction to DBiT-seq spatial workflow

AtlasXbrowser:

• Overview
• Installation
• OpeningFolder
• ImageConfiguration
• Thresholding
• ROICharacterization
• SpatialFolder
• ExampleWalkthrough

AtlasXplore:

• Overview
• Introduction
• Genome Browser
• Motif Search
• Lasso Selector
• Cell Type Labeling
• Plot Saving
• FAQ

AtlasXanalyze:

• Installation
• Spatial Epigenome
  • Overview of Visualization Workflow
  • Dependencies
  • Inputs
  • ArchR Project Creation
  • Spatial Object Creation
  • Additional Visualizations
  • Spatial Plots of Enriched Motifs
  • Call peaks
  • Add peak matrices
  • Motif enrichment (Deviation)
  • Get marker motifs
  • Get marker features and create list of enriched motifs
  • Deviation scores and matrices
  • Filtering and setting default assay
  • Creating Spatial plots for enriched motifs