Supported Applications
OpenFold
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Description
a trainable, memory-efficient, and GPU-friendly 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
Available operating systems: Linux 64 -
Primary Citation*
G. Ahdritz, N. Bouatta, S. Kadyan, Q. Xia, W. Gerecke, and M. AlQuraishi. 2021. OpenFold. Zenodo. https://doi.org/10.5281/zenodo.5709539.
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*Full citation information available through
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Citation Note
Any work that cites OpenFold should also cite AlphaFold.
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Keywords
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Default Versions
Linux 64:  0.1.0 (12.4 GB)
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Developers
Mohammed AlQuraishi, Gustaf Ahdritz, Qinghui Xia, Sachin Kadyan