Spring 2018 Bioinformatics course, Rockefeller University

Overview

  • Who are we?
  • What is this course?
  • What is the end goal?

Who are we?

  • Bioinformatics Resource Centre
    • Tom Carroll
    • Ji-Dung Luo (late March)
  • Collaborators (Outside RU)
    • Mark Dunning (Cambridge University, CRUK)
    • MRC LMS (Imperial College London)
  • Collaborators (Rockefeller University)
    • ​Wei Wang

       

What is the course?

  • Introduction in NGS analysis in R/Bioconductor.
    • Introduction R
    • NGS datatypes
    • Working with NGS data.
    • ChIPseq, ATACseq and RNAseq basics.
    • Visualising genomics data.
  • Culmination of R and Bioconductor training with updates to latest toolsets.
    • Cambridge University.
    • Imperial College London.
    • MRC LMS and MRC CSC.

Goals

  • Introduce concepts of processing and analysis of High Throughout Sequencing Data analysis.
  • Gain experience working with genomics data in R.
  • Provide reference material for HTS analysis at Rockefeller University.
  • Much of our HTS pipeline use R in processing, analysis and reporting.
  • R objects are saved from pipeline for use in downstream analysis

Goals - The Manual