Machine Learning in Bioinformatics using Galaxy

This workshop intends to facilitate the training and discourse amongst bioinformatics researchers interested in machine learning using Galaxy. It will be a one-day event, including six sessions and during this workshop we will train researchers to use Galaxy for
machine learning analysis.

The first session will provide an introduction to Galaxy. Galaxy is a scientific platform that helps scientists to analyse data without any programming skills. To analyse data, workflows can be created to make the analyses reproducible and shareable.

In the second session, basic concepts in machine learning will be introduced.

The next three sessions will serve as a hands-one sessions to follow training tutorials with case studies to see how classification algorithms, regression models and unsupervised learning methods in Galaxy can be used to solve real-world problems. In the last session, we will introduce feature selection and hyper parameter optimization methods in Galaxy and the workshop will be summing up at the end.


  • Galaxy introduction
  • Machine learning basics
  • Classifiers (logistic regression, k-nearest neighbours, support vector machines and
    random forest)
  • Regressor (linear, non-linear and ensemble models)
  • Unsupervised learning (clustering and dimension reduction)
  • Feature selection methods
  • Hyper-parameter optimization


09:00 – 09:45 Welcome and Introduction to Galaxy
09:45 – 10.30  Machine Learning Basics
10:30 – 10:45  Coffee Break
10:45 – 12:15   Classifiers
12:15 – 13:30   Lunch Break
13:30 – 15:00  Regressors
15:00 – 15:45  Unsupervised Learning
15:45 – 16:00  Coffee Break
16:00 – 16:45  Feature Selection and Hyper parameter Optimization
16:45 – 17:00  Conclusion

Target audience

The target audience includes researchers interested in analysing biological data using machine learning algorithms and want to use machine learning for classification, regression and clustering tasks. Specifically, we encourage scholars that have begun biological data analysis and interested to know what is machine learning and how they can use Galaxy for machine learning tasks.


More information coming soon


Dr. Alireza Khanteymoori, Freiburg University, Germany
Dr. Björn Grüning, Freiburg University, Germany
Anup Kumar, Freiburg University, Germany


Dr. Alireza Khanteymoori
Email: khanteymoori@gmail.com, alireza@informatik.uni-freiburg.de