March 2015 Feng Lab meeting

The Data Scientist’s Toolbox for ChIP-Seq and Beyond

Feng Lab Group meeting by Wayne in March.

Slides link.

A Google Doc for sharing today

http://we.tl/TYWUi1aFRf

3:40am-5:30pm, March 19th, 2015. (2nd session; see first session info here; next session hands-on here)

• Getting started
  • Using this Web site
  • Preparation
  • Intro to technology
• For today
  • ChIP-seq
• Examples from the Wild I: REGULAR EXPRESSIONS
  • NGS Analysis of ChIP-seq data with NUCwave
• Examples from the Wild 2: IPython Notebooks
  • NGS Analysis of ChIP-seq data using IPython Notebooks to Explore
• Examples from the Wild 3: Git, Github, and Gists
  • Git, Github, and Gists
• Examples from the Wild 4: R, the Bioconductor Project for R, RStudio
  • R, the Bioconductor Project for R, RStudio
• Sources
• Going forward
  • Look into
• Literature Selections for ChIP-seq
  • ChIP-Seq
  • Bias issues
  • Related
  • Motif identification
• ACRONYMS
  • Partial List of the Acronyms in ChIP-related Work