Taiji: An integrated analysis pipeline

Contents:

• Compile from source
  • Install stack
  • Download Taiji source and install GHC
  • Install Taiji
• Tutorial
  • Introduction
  • How to use
  • Parallelism and distributed computing
  • Auto-recovery
  • Results
• Configuration
  • Basic options
  • Advanced options
  • Single cell ATAC-seq analysis
  • Single cell RNA-seq analysis
  • Distributed computing
• Input data format
  • ATAC-seq
  • RNA-seq
  • Single cell RNA-seq
  • HiC
  • Data from the internet
• Advanced Usage
  • Visualizing the workflow
  • Cache manipulation
  • Parallelism and Distributed computing
• Linux Primer
  • Linux path environment variable