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google-deepmind / deepmind-research

This repository contains implementations and illustrative code to accompany DeepMind publications
Apache License 2.0
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Open Source the entire AlphaFold pipeline? #129

Closed cement-head closed 3 years ago

cement-head commented 3 years ago

This is exciting, but kinda not without the entire pipeline open-sourced and available for wide usage. Would you (all) consider making this available - rather than EUs having to best-guess how it was all done? Thx

Augustin-Zidek commented 3 years ago

Sorry, we’re unable to open source the data and minimisation parts of the pipeline. However, the Methods section in the AlphaFold Nature paper (https://rdcu.be/b0mtx) should provide sufficient amount of details to enable reimplementation. I believe there are also open-source AlphaFold reimplementation available on GitHub.

monkollek commented 3 years ago

@cement-head if you are interested I implemented the protein folding part of the pipeline during the holiday break. https://github.com/leklab/alphafoldv1 as I was interested in reproducing (or close to it) for some of the figures in the Nature publication.