InterMine Training Portal

InterMine Training Portal is developed for users of InterMine, which integrates biological data sources, making it easy to query and analyse data.

Python Tutorial

We have video and text tutorials on how to query the InterMine API with the Python client. Click here to see them.

Training Workshops

We typically carry out a few training workshops each year - keep your eye on our calendar or twitter feed to find out when registration is open.

Materials

• Intro To Data Analysis:
  • Intro to data analysis with the InterMine user interface
• Data Analysis Workflows:
• 🐍 Python
  • Python Pax6 Workflow (unsolved):
  • Python Pax6 Workflow (with answers):
• 🇷 Data analysis workflows in R
  • R Pax6 Workflow (unsolved)
  • R Pax6 Workflow (with answers)

• July 4, 2019 - Handling integrated biological data using Python, Jupyter, and InterMine
• June 19, 2019 - UI + API training courses at Cambridge Bioinformatics Training Facility
• February 13, 2019 - EBI Multiomics Data Integration
• June, 2018 - GCCBOSC 2018
  • Shorter UI section, with a longer API focus. 2.5 hours.
• February, 2018 - EBI Multiomics course
  • Mostly UI-oriented with a short API section.
  • Shortlink: bit.ly/intermine-ebi-2018

Exercises

• 🇷 Producing figures and data visualisations in R (Advanced):
  • Enrichment and visualisations (unsolved):
  • Enrichment and visualisations (with answers):

Videos

Here’s a short list of video tutorials produced by community members. If you’d like yours added to the list please contact us!

• Humanmine tutorials - using the new BlueGenes interface
• FlyMine intro videos - for the Drosophila-minded among us.
• TargetMine tutorials Tutorials for an InterMine designed to help identify drug targets.
• YeastMine videos - SGD has quite a broad range of tutorials based on S. Cerevisiae data.
• MouseMine at MGI - M. musculus InterMine intro
• Python tutorials - Tutorials to help you get familiarised with the intermine-python package. The tutorials are in the form of Jupyter-Notebooks.