ACEseq - Allele-specific copy numbers from sequencing

• License
• Need help?
• Installation & Run instructions
  • The Standard Way
  • Prepackaged files (ACEseq 1.2.10 only)
• QuickStart
• Requirements
  • Hardware
  • Software
• Alternative Running Modes
  • Run Without Control
  • Run quality check only
  • Replace low quality control
  • Run with/without SV breakpoint incorporation
• Input Parameters
• Purity Evaluation
• Quality check
• Final Output
• HRD, LST, TAI
• Methods - Theory
  • Pre-processing
  • GC-/Replication timing bias correction
  • Segmentation
  • Segment reliability
  • Segment clustering and merging
  • Allelic adjustment
  • Calling of Allelic Balance and Imbalance
  • Copy Number Estimation
  • Purity and ploidy estimation