Overview

• What’s the STARK?

CLI_TUTORIAL

• install the STARK
  • Command
• preprocess the sc3DG
  • Navigation
  • Typical Workflow
  • The illumination of the Result
• 3D model the sc3DG
• Get imputed contact map
• Calculate the normlized detection score
  • introduction of normalized detection score
  • calculate the chromosome territory detection score
  • calculate the chromosome TADs detection score
  • calculate the chromosome A/B compartment detection score
• Accumlated Analysis
• Merge the topN/bottomN cell
• Spatial Structure Capture Efficiency
• calculate the GiniQC
• detect the loop
• EmptyCells
  • sc3DG-seq technologies
  • EmptyCells Method
  • Step 1: Threshold Establishment
  • Step 2: Low-Quality Barcode Profile Construction
  • Barcode Quality Assessment
  • P-value Calculation
• Clustering

Follow cooler development on GitHub.

Also, the corresponding database scNucleome is online.