Imaging

Image analysis using Galaxy

Requirements

Before diving into this topic, we recommend you to have a look at:

• Introduction to Galaxy Analyses

Galaxy instances

You can use a public Galaxy instance which has been tested for the availability of the used tools. They are listed along with the tutorials above.

You can also use the following Docker image for these tutorials:

docker run -p 8080:80 quay.io/galaxy/imaging-training

NOTE: Use the -d flag at the end of the command if you want to automatically download all the data-libraries into the container.

It will launch a flavored Galaxy instance available on http://localhost:8080. This instance will contain all the tools and workflows to follow the tutorials in this topic. Login as admin with password admin to access everything.

Maintainers

This material is maintained by:

Thomas Wollmann

For any question related to this topic and the content, you can contact them or visit our Gitter channel.

Contributors

This material was contributed to by:

Thomas Wollmann

Saskia Hiltemann

References

• Thomas Wollmann et al: Workflows for microscopy image analysis and cellular phenotyping