For the workshop we use Ubuntu Linux as the main Operating System. We have created a VirtualBox image, including all the necessary tools and data. You are of course welcome to use your own Linux-based system.
Installing the VirtualBox image
VirtualBox is a virtualization tool from VMWare and is freely available.
Please download the The Ubuntu image and store it on a local hard drive. A network location usually does not work, so it is better to store it locally.
Installing the data and tools on your own Ubuntu
The list of tools used for workshop:
- Java 8
- Assembly-stats
- Minimap2
- Canu
- Platanus
- Mummer 4
- Samtools & BCF tools
- Tablet
- Integrative Genomics Viewer (optional)
The workshop code folder contains a shell-script installing_workshop_vm.sh which installs all required packages.
The data are available from Dropbox.