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Title: GitHub - biolists/folding_tools: A collection of *fold* tools · GitHub

Open Graph Title: GitHub - biolists/folding_tools: A collection of *fold* tools

X Title: GitHub - biolists/folding_tools: A collection of *fold* tools

Description: A collection of *fold* tools. Contribute to biolists/folding_tools development by creating an account on GitHub.

Open Graph Description: A collection of *fold* tools. Contribute to biolists/folding_tools development by creating an account on GitHub.

X Description: A collection of *fold* tools. Contribute to biolists/folding_tools development by creating an account on GitHub.

Opengraph URL: https://github.com/biolists/folding_tools

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	https://github.com/biolists/folding_tools/commits/main/
LICENSE	https://github.com/biolists/folding_tools/blob/main/LICENSE
LICENSE	https://github.com/biolists/folding_tools/blob/main/LICENSE
README.md	https://github.com/biolists/folding_tools/blob/main/README.md
README.md	https://github.com/biolists/folding_tools/blob/main/README.md
pLM.md	https://github.com/biolists/folding_tools/blob/main/pLM.md
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proteinsequencedesign.md	https://github.com/biolists/folding_tools/blob/main/proteinsequencedesign.md
proteinsequencedesign.md	https://github.com/biolists/folding_tools/blob/main/proteinsequencedesign.md
README	https://github.com/biolists/folding_tools
MIT license	https://github.com/biolists/folding_tools
Predictors	https://github.com/biolists/folding_tools#Predictors
Tools and Extensions	https://github.com/biolists/folding_tools#Tools
Databases and Datasets	https://github.com/biolists/folding_tools#Databases
Webservers	https://github.com/biolists/folding_tools#Webservers
Discontinued	https://github.com/biolists/folding_tools#Discontinued
at Kevin's incredible ML for proteins list	https://github.com/yangkky/Machine-learning-for-proteins
@sacdallago	https://twitter.com/sacdallago
@sokrypton	https://twitter.com/sokrypton
	https://github.com/biolists/folding_tools#predictors
	https://github.com/deepmind/alphafold
	https://www.nature.com/articles/s41586-021-03819-2
Colab Notebook	https://colab.research.google.com/github/deepmind/alphafold/blob/main/notebooks/AlphaFold.ipynb
	https://github.com/sokrypton/ColabFold
	https://www.nature.com/articles/s41592-022-01488-1
localcolabfold	https://github.com/YoshitakaMo/localcolabfold
	https://github.com/hpcaitech/FastFold
	https://arxiv.org/abs/2203.00854
	https://github.com/PaddlePaddle/PaddleHelix/tree/dev/apps/protein_folding/helixfold
	https://arxiv.org/abs/2207.05477
	https://gitee.com/mindspore/mindscience/tree/master/MindSPONGE/applications/MEGAProtein
	https://arxiv.org/abs/2206.12240
	https://github.com/aqlaboratory/openfold
Colab Notebook	https://colab.research.google.com/github/aqlaboratory/openfold/blob/main/notebooks/OpenFold.ipynb
	https://github.com/RosettaCommons/RoseTTAFold
	https://www.science.org/doi/10.1126/science.abj8754
Unofficial Colab Notebook	https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/RoseTTAFold.ipynb
	https://github.com/dptech-corp/Uni-Fold
	https://doi.org/10.1101/2022.08.04.502811
Colab Notebook	https://colab.research.google.com/github/dptech-corp/Uni-Fold/blob/main/notebooks/unifold.ipynb
	https://github.com/dptech-corp/Uni-Fold-jax
	https://doi.org/10.1101/2022.08.04.502811
	https://github.com/facebookresearch/esm
	https://doi.org/10.1101/2022.07.20.500902
Unofficial Colab notebook	https://github.com/sokrypton/ColabFold/blob/main/ESMFold.ipynb
API	https://esmatlas.com/resources?action=fold
	https://github.com/kWeissenow/EMBER3D
	https://github.com/PaddlePaddle/PaddleHelix/tree/dev/apps/protein_folding/helixfold-single
	https://arxiv.org/abs/2207.13921
https://paddlehelix.baidu.com/app/drug/protein-single/forecast	https://paddlehelix.baidu.com/app/drug/protein-single/forecast
	https://github.com/Graylab/IgFold
	https://doi.org/10.1101/2022.04.20.488972
Colab Notebook	https://colab.research.google.com/github/Graylab/IgFold/blob/main/IgFold.ipynb
	https://github.com/HeliXonProtein/OmegaFold
	https://doi.org/10.1101/2022.07.21.500999
Unofficial Colab Notebook	https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/beta/omegafold.ipynb
[tweet] Martin comparing structures	https://twitter.com/thesteinegger/status/1554881669718573062
[tweet] Sergey's positional encoding observation	https://twitter.com/sokrypton/status/1555536325176168448
Github	https://github.com/aqlaboratory/rgn2
	https://doi.org/10.1038/s41587-022-01432-w
	https://doi.org/10.1101/2022.10.07.511322
Paper	https://www.nature.com/articles/s41586-024-07487-w
Source Code	https://github.com/PaddlePaddle/PaddleHelix/tree/dev/apps/protein_folding/helixfold3
Server	https://paddlehelix.baidu.com/app/all/helixfold3/forecast
Paper	https://arxiv.org/abs/2408.16975
Limited Source Code	https://github.com/chaidiscovery/chai-lab
Server	https://lab.chaidiscovery.com
Paper	https://chaiassets.com/chai-1/paper/technical_report_v1.pdf
Source Code	https://github.com/Ligo-Biosciences/AlphaFold3
Source Code	https://github.com/lucidrains/alphafold3-pytorch
	https://github.com/biolists/folding_tools#tools-and-extensions
	https://github.com/pachterlab/gget#gget-alphafold-
	https://doi.org/10.1101/2022.05.17.492392
	https://github.com/phbradley/alphafold_finetune
	https://doi.org/10.1101/2022.07.12.499365
[tweet] Amir's announcement	https://twitter.com/AMotmaen/status/1547435940011945984
	https://www.embl-hamburg.de/AlphaPulldown/
	https://doi.org/10.1101/2022.08.05.502961
	https://github.com/sokrypton/ColabDesign
	https://github.com/jproney/AF2Rank
	https://doi.org/10.1101/2022.03.11.484043
Colab Notebook	https://colab.research.google.com/github/sokrypton/ColabDesign/blob/main/af/examples/AF2Rank.ipynb
	https://github.com/pengzhangzhi/protein_structure_module_of_AF2
	https://github.com/biolists/folding_tools#databases-of-predictions
	https://doi.org/10.1093/nar/gkab1061
https://alphafold.ebi.ac.uk	https://alphafold.ebi.ac.uk
	https://www.science.org/doi/10.1126/science.abm4805
https://www.ebi.ac.uk/pdbe/news/predicted-complexes-modelarchive-now-pdbe-kb-pages	https://www.ebi.ac.uk/pdbe/news/predicted-complexes-modelarchive-now-pdbe-kb-pages
	https://doi.org/10.1101/2022.06.08.495354
https://www.isoform.io	https://www.isoform.io
	https://doi.org/10.1101/2021.11.26.470110
https://alphafill.eu/	https://alphafill.eu/
	https://doi.org/10.1101/2022.04.20.488972
https://data.graylab.jhu.edu/igfold_oas_paired95.tar.gz	https://data.graylab.jhu.edu/igfold_oas_paired95.tar.gz
	https://github.com/biolists/folding_tools#datasets-for-training
https://arxiv.org/abs/2308.05326	https://arxiv.org/abs/2308.05326
https://registry.opendata.aws/openfold/	https://registry.opendata.aws/openfold/
https://arxiv.org/abs/2206.12240	https://arxiv.org/abs/2206.12240
http://ftp.cbi.pku.edu.cn/psp/	http://ftp.cbi.pku.edu.cn/psp/
	https://github.com/biolists/folding_tools#webservers
	https://doi.org/10.1101/2022.08.04.502750
http://embed.predictprotein.org/	http://embed.predictprotein.org/
https://robetta.bakerlab.org/	https://robetta.bakerlab.org/
	https://github.com/biolists/folding_tools#discontinued
https://www.getmoonbear.com/	https://www.getmoonbear.com/
[tweet] Stephanie's announcement	https://twitter.com/stephanieszhang/status/1427773598199164937
	https://github.com/lucidrains/alphafold2
	https://github.com/lupoglaz/OpenFold2
Readme	https://github.com/biolists/folding_tools#readme-ov-file
MIT license	https://github.com/biolists/folding_tools#MIT-1-ov-file
Please reload this page	https://github.com/biolists/folding_tools
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33 forks	https://github.com/biolists/folding_tools/forks
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Releases	https://github.com/biolists/folding_tools/releases
Packages 0	https://github.com/orgs/biolists/packages?repo_name=folding_tools
Please reload this page	https://github.com/biolists/folding_tools
Contributors	https://github.com/biolists/folding_tools/graphs/contributors
Please reload this page	https://github.com/biolists/folding_tools
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