Tutorial schedule
- lecture;
- hands-on workshop;
- break
All of the following notebooks can be downloaded from the source Github repository. Please refer to the html files if you have difficulty with installations. The schedule time is indicated in UTC, check your time here.
Instructions on how to run each notebook are indicated in the labs page after installing the docker containers.
Before the tutorial
Prepare by going through the installation instructions and the following notebooks:
- Data pre-processing notebook (html)
- Dimensionality reduction (html)
- Feature selection notebook (html)
July 22
11.00 - 11.10 Introduction (Rui, slides)
11.10 - 11.30 Machine Learning view of Integrative Omics (Nikolay, slides)
11.30 - 12.00 Supervised data integration (Nikolay, slides)
12.00 - 12.10 Break
12.10 - 13.00 Unsupervised data integration (Nikolay, slides)
13.00 - 13.10 Break
13.10 - 14.35 Hands-on exercises. Choose one of the following:
Supervised integration notebook (html) found in ./session_ml/SupervisedOMICsIntegration/supervised_omics_integr_CLL.Rmd
Unsupervised integration notebook (html) found in ./session_ml/UnsupervisedOMICsIntegration/UnsupervisedOMICsIntegration.Rmd
14.35 - 14.40 Break
14.40 - 15.00 Summary (Nikolay)
July 23
11.00 - 11.50 Introduction to network analysis (Rui, slides)
11.50 - 12.00 Break
12.00 - 12.30 Network properties and community identification (Rui, slides)
12.30 - 12.40 Break
12.40 - 13.10 Network meta-analysis (Ashfaq,lecture, pdf)
13.10 - 14.35 Hands-on exercises. Choose one of the following:
Multi-omic network analysis notebook (html) found in ./session_topology/lab.ipynb
Network meta-analysis notebook (html) found in ./session_meta/lab_meta-analayses-v2.Rmd
14.35 - 14.40 Break
14.40 - 15.00 Summary and closing remarks (Rui and Ashfaq, slides)
Teachers: