AlphaFold2 on Alpine (RC Short Course)

AlphaFold2 is an open-source artificial intelligence program that predicts the 3D structure of proteins based on their amino acid sequence. The program and its underlying algorithm solve a long-standing problem in structural biology, so adoption by the research community has been swift and enthusiastic.

Running AlphaFold2 involves a simple input file and few parameter specifications, but requires access to large-scale computational resources such as GPUs and enough RAM to perform a search against a collection of datasets exceeding 2 TB. This RC Short Course* will provide an overview of running AlphaFold2 on CU Boulder’s Alpine supercomputer, covering performance considerations and limitations, predicting monomer and multimer proteins, checking AlphaFold2 outputs, and how to take advantage of spin-offs like ParaFold.

Participants should have a Research Computing Account prior to the start of the training if they wish to try hands-on examples. RMACC members should refer to our RMACC Access to Alpine page.

* What is an RC Short Course? A training that provides an in-depth understanding of a concept, system, or tool. You can expect to leave a "Short Course" with a solid grasp of the topic