Short Course to get Bioinformaticians at CRUK-CI up-to-speed on Docker

View the Project on GitHub bioinformatics-core-shared-training/docker-4-bioinformatics

Introduction to Docker for Bioinformatics

We introduce Docker and how it can be used to distribute Bioinformatics software


  1. Watch this introductory video on youtube
  2. Install Docker for your operating system. Docker for Mac requires OS X 10.10.3 Yosemite or newer. Docker for Windows requires Windows 10. If you do not have Mac OSX 10.10.3 or Windows 10, you will have to install Docker Toolbox

  3. Follow the installation instructions

  4. Once docker is sucessfully running, you can run the following at the command-line:-
  5. docker pull ubuntu

    docker pull dellytools/delly

    docker pull bioconductor/release_base

  6. For the practical you could also download This bam file, its index file and the reference sequence for chromosome 21


  • Intro
  • Running Docker Containers
  • Modifying Docker Containers
  • Creating Docker Containers