sokrypton / sokrypton/ColabFold
Update ColabFold to use AlphaFold 2.3.0 to predict larger structures
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- Dominant language
- Jupyter Notebook
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Description
Do you plan to update ColabFold to use AlphaFold 2.3.0? It uses less memory running multimer predictions allowing larger structure predictions that would be very valuable for researchers.
Here are the AlphaFold 2.3.0 release notes
https://github.com/deepmind/alphafold/releases/tag/v2.3.0
I guess an update would require updating the Steinegger lab AlphaFold github fork
https://github.com/steineggerlab/alphafold
I post this issue at the ColabFold github because the Steinegger AlphaFold fork does not have issue tracking enabled.
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Read the AlphaFold 2.3.0 release notes and compare them with the Steinegger lab AlphaFold fork and ColabFold integration. Determine the update scope across those projects and define done as ColabFold using AlphaFold 2.3.0 for larger multimer predictions.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- jupyter-notebook
- Domain
- bioinformatics, machine-learning
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100