Supported Applications
RFDesign
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Description
a tool for protein hallucination and inpainting with RoseTTAFold.
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Usage
To list all executables provided by RFDesign, run:$ sbgrid-list rfdesign
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Usage Notes
RFDesign in SBGrid/BioGrids provides the following callable executables:
python.rfdesign
hallucinate.py
inpaint.py
Use python.rfdesign when calling scripts:
$ python.rfdesign hallucinate.py
or call the scripts directly (without a path):
$ hallucinate.py
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Installation
Use the following command to install this title with the CLI client:$ sbgrid-cli install rfdesign
Available operating systems: Linux 64 -
Primary Citation*
J. Wang, S. Lisanza, D. Juergens, D. Tischer, I. Anishchenko, M. Baek, J. L. Watson, J. H. Chun, L. F. Milles, J. Dauparas, M. Expòsit, W. Yang, A. Saragovi, S. Ovchinnikov, and D. Baker. 2021. Deep learning methods for designing proteins scaffolding functional sites. bioRxiv 2021.11.10.468128.
M. Baek, F. DiMaio, I. Anishchenko, J. Dauparas, S. Ovchinnikov, G. R. Lee, J. Wang, Q. Cong, L. N. Kinch, R. D. Schaeffer, C. Millán, H. Park, C. Adams, C. R. Glassman, A. DeGiovanni, J. H. Pereira, A. V. Rodrigues, A. A. van Dijk, A. C. Ebrecht, D. J. Opperman, T. Sagmeister, C. Buhlheller, T. Pavkov-Keller, M. K. Rathinaswamy, U. Dalwadi, C. K. Yip, J. E. Burke, K. C. Garcia, N. V. Grishin, P. D. Adams, R. J. Read, and D. Baker. 2021. Accurate prediction of protein structures and interactions using a three-track neural network. Science. 373(6557): 871-876.
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*Full citation information available through
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Keywords
Protein-Protein Interaction Prediction, Protein Structure Analysis
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Default Versions
Linux 64:  c882ab0 (12.6 GB)
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Developers
Jue Wang, Doug Tischer, Sidney Lisanza, David Juergens, Joe Watson