Description

This course gives a high level overview of the AlphaFold 2 algorithm with the goal of using it on the Tufts HPC cluster to predict and analyze protein structures. For support with this workshop please contact tts-research@tufts.edu.

Goals

Prerequisites

Computational skills needed

• Introduction to Linux
• Introduction to HPC

Materials Needed

• Account on Tufts HPC
• VPN if accessing the HPC from off campus
• PyMOL

Table Of Contents

• Introduction to AlphaFold2
• Setup
• AlphaFold2 Output
• PyMOL Visualization
• Optional: Writing an AlphaFold2 Batch Script

Acknowledgement

Much of this course has been adapted from the VIB Bioinformatics Core AlphaFold2 Tutorial. We would also like to thank the Oxford Protein Informatics Group for their digestible take on the AlphaFold2 algorithm.

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