Welcome to Chipster

Chipster is a user-friendly analysis software for high-throughput data such as RNA-seq and single cell RNA-seq. It contains over 450 analysis tools and a large collection of reference genomes. Up to version 3.x Chipster is a desktop application requiring Java Web Start. Chipster version 4 is a Web application which runs on your browser. Both run the actual analysis in the cloud and the analysis tool content is the same, but we encourage users to move to the Web App. The Java desktop application will be phased out in November 2020 because many universities don't provide Java Web Start any more due to the change in Oracle's Java licensing policy.

If you would like to use Chipster running on CSC's server, you need a user account. Please note that both the v3 server and the v4 server are also available for local installations free of charge.

Launch Chipster v4 Launch Chipster v4
Chipster web application, no Java needed (watch introductory video)
Launch Chipster Launch Chipster v3.16.3
...or launch with more memory: 3 GB or 6 GB
Java desktop application. If you have trouble launching it, read the FAQ

News and resources:

Training: