Welcome to the Epigenomics tutorial documentation!

If you are taking part in our tutorial at ISMB 2017, then you find the information here that you need. The documentation is split up into 4 parts. Make sure that you read and follow the What you need and Installation guides before you appear in Prague.

Contents:

• What you need
• Installation
  • histoneHMM
  • HINT
  • IGV
  • TEPIC
• Practical I - Differential Histone peak calling
  • Step 1: Checking read alignments
  • Step 2: Calling modified regions
  • Step 3: Differential region calling
• Practical II - Footprint calling & Transcription factor prediction
  • Step1: Footprint calling
  • Step2: Intersecting footprints with differential histone peaks
  • Step3: Deriving candidate transcriptional regulators using DYNAMITE