2020 Bioinformatics course,

Bioinformatics Resource Center

Rockefeller University

Overview

  • Who are we?
  • What is covered in this course?
  • How do I ask for help?

Who are we?

  • Bioinformatics Resource Centre
    • Ji-Dung Luo
    • Matt Paul
    • Wei Wang
    • Tom Carroll
  • Collaborators (Outside RU)
    • Mark Dunning (Cambridge University, CRUK)
      • https://github.com/bioinformatics-core-shared-training​
    • Shamith Samarajiwa (Cambridge University, MRC Cancer unit)
    • Imperial College London (MRC LMS)
    • Levi Waldron (CUNY)
  • Collaborators (Rockefeller University)
    • ​Douglas Barrows

    • Elitsa Stoyanova

    • Gregory Gedman

    • Robert Williams

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.
    • Rockefeller University

 

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

Updated course pages

Automatic site updates

Getting help out of class?

All our courses come with their own issues page.

  • Sign up for Github.
  • Visit the page and raise issue requests.

 

  • Allows us to updates courses to better answer/explain issues.
  • Provides a reference for other users who may want to ask a similar question.

A High Throughput Ssequencng Guide in R

Settle in and enjoy the course!