Supported Applications
OpenFold
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Description
A faithful PyTorch reproduction of DeepMind's AlphaFold 2.
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Usage Notes
SBGrid/BioGrids OpenFold provides the following directly callable programs:
build_deepspeed_config.py data_dir_to_fasta.py generate_chain_data_cache.py generate_mmcif_cache.py precompute_alignments.py precompute_alignments_mmseqs.py prep_proteinnet_msas.py python.openfold run_pretrained_openfold.py train_openfold.py unpack_proteinnet.py
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Installation
Use the following command to install this title with the CLI client:$ sbgrid-cli install openfold
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Citation Note
Please cite OpenFold as follows:
@software{Ahdritz_OpenFold_2021,
author = {Ahdritz, Gustaf and Bouatta, Nazim and Kadyan, Sachin and Xia, Qinghui and Gerecke, William and AlQuraishi, Mohammed},
doi = {10.5281/zenodo.5709539},
month = {11},
title = {{OpenFold}},
url = {https://github.com/aqlaboratory/openfold},
year = {2021}
}
Any work that cites OpenFold should also cite AlphaFold.
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Default Versions
Linux 64:  0.1.0