Name: Handling integrated biological data using Python, Jupyter, and InterMine
Start: 2020-07-19T03:31:00-0400
End: 2020-07-19T06:00:00-0400

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BCC2020 is online, global, and affordable. The meeting and training are now done, and the CoFest is under way.

The 2020 Bioinformatics Community Conference brings together the Bioinformatics Open Source Conference (BOSC) and the Galaxy Community Conference into a single event featuring training, a meeting, and a CollaborationFest. Events run from July 17 through July 25, and is held in both the eastern and western hemispheres.

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Handling integrated biological data using Python, Jupyter, and InterMine

→ Tutorial, Video

This tutorial will guide you through loading and analyzing integrated biological data (generally genomic or proteomic data) using InterMine, either via UI or via an API in Python. Topics covered will include automatically generating code to perform queries, customising the code to meet your needs, and automated analysis of sets, e.g gene sets, including enrichment statistics. Skills gained can be re-used in any of the dozens of InterMines available, covering a broad range of organisms and dedicated purposes, from model organisms to plants, drug targets, and mitochondrial DNA.
Users will also learn how to import and export their gene and protein lists to and from Jupyter notebooks hosted on https://jupyter.org/.

Prerequisites