* See: https://chipster.csc.fi/access.shtml

- Teacher
Eija Korpelainen
Bioinformatics tools often require installing different dependencies in a
controlled environment. Containers allow you to logically package your
application (e.g., a bioinformatics tool) together with libraries and
other dependencies, providing isolated environments for running your
software services. Containerized applications can be run in an isolated
runtime environment independent of the actual environment (e.g., private
data center, the public cloud, or even a developer’s personal laptop)
in which the applications are running in. These are recently gaining
popularity as a standard way to distribute, deploy, and run services by
developers and system administrators. This course will introduce the
basic concepts of containers and their deployment at CSC.
Bioinformatics tools often require installing different dependencies in a
controlled environment. Containers allow you to logically package your
application (e.g., a bioinformatics tool) together with libraries and
other dependencies, providing isolated environments for running your
software services. Containerised applications can be run in an isolated
runtime environment independent of the actual environment (e.g., private
data center, the public cloud, or even a developer’s personal laptop)
in which the applications are running in. These are recently gaining
popularity as a standard way to distribute, deploy, and run services by
developers and system administrators. This course will focus on the
deployment of containerised applications in HPC environment. The course
will also introduce a modern workflows manager (i.e., nextflow ) to
perform complex analysis in bioinformatics..
- Teacher
Ari-Matti Sarén
This is a basic level course on containers which are a modern way of deploying complex applications. In this course, the basics of docker container and its containnerised applications in bioinformatics will be discussed. Emphasis will be given to the deployment of different pre-existing dockerised bio-applications. Selected examples from different omics’ disciplines such as genomics, proteomics and metabolomics will be covered. We will introduce HPC-compliant containers in CSC environment.
- Teacher
Laxmana Yetukuri
* See: https://chipster.csc.fi/access.shtml

- Teacher
Atte Sillanpää