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Supported Applications

Rosetta

  • Description

    a software suite for modeling macromolecular structures and for predicting and designing protein structures, protein folding mechanisms, and protein-protein interactions.

  • Usage

    To list all executables provided by Rosetta, run: $ sbgrid-list rosetta Copy to clipboard

  • Installation

    Use the following command to install this title with the CLI client: $ sbgrid-cli install rosetta Copy to clipboard Available operating systems: Linux 64, OS X INTEL

  • Primary Citation*

    J. Koehler-Leman, B. D. Weitzner, S. M. Lewis, J. Adolf-Bryfogle, N. Alam, R. F. Alford, M. Aprahamian, D. Baker, K. A. Barlow, P. Barth, B. Basanta, B. J. Bender, K. Blacklock, J. Bonet, S. E. Boyken, P. Bradley, C. Bystroff, P. Conway, S. Cooper, B. E. Correia, B. Coventry, R. Das, R. M. De-Jong, F. DiMaio, L. Dsilva, R. Dunbrack, A. S. Ford, B. Frenz, D. Y. Fu, C. Geniesse, L. Goldschmidt, R. Gowthaman, J. J. Gray, D. Gront, S. Guffy, S. Horowitz, P.-S. Huang, T. Huber, T. M. Jacobs, J. R. Jeliazkov, D. K. Johnson, K. Kappel, J. Karanicolas, H. Khakzad, K. R. Khar, S. D. Khare, F. Khatib, A. Khramushin, I. C. King, R. Kleffner, B. Koepnick, T. Kortemme, G. Kuenze, B. Kuhlman, D. Kuroda, J. W. Labonte, J. K. Lai, G. Lapidoth, A. Leaver-Fay, S. Lindert, T. Linsky, N. London, J. H. Lubin, S. Lyskov, J. Maguire, L. Malmström, E. Marcos, O. Marcu, N. A. Marze, J. Meiler, R. Moretti, V. K. Mulligan, S. Nerli, C. Norn, S. Ó’Conchúir, N. Ollikainen, S. Ovchinnikov, M. S. Pacella, X. Pan, H. Park, R. E. Pavlovicz, M. Pethe, B. G. Pierce, K. B. Pilla, B. Raveh, P. D. Renfrew, S. S. R. Burman, A. Rubenstein, M. F. Sauer, A. Scheck, W. Schief, O. Schueler-Furman, Y. Sedan, A. M. Sevy, N. G. Sgourakis, L. Shi, J. B. Siegel, D.-A. Silva, S. Smith, Y. Song, A. Stein, M. Szegedy, F. D. Teets, S. B. Thyme, R. Y.-R. Wang, A. Watkins, L. Zimmerman, and R. Bonneau. 2020. Macromolecular modeling and design in Rosetta: recent methods and frameworks. Nature Methods. 17: 665-680.

    J. Koehler-Leman, B. D. Weitzner, P. D. Renfrew, S. M. Lewis, R. Moretti, A. M. Watkins, V. K. Mulligan, S. Lyskov, J. Adolf-Bryfogle, J. W. Labonte, J. Krys, RosettaCommons-Consortium, C. Bystroff, W. Schief, D. Gront, O. Schueler-Furman, D. Baker, P. Bradley, R. Dunbrack, T. Kortemme, A. Leaver-Fay, C. E. M. Strauss, J. Meiler, B. Kuhlman, J. J. Gray, and R. Bonneau. 2020. Better together: Elements of successful scientific software development in a distributed collaborative community. PLoS Computational Biology. 16(5): e1007507.

    A. Leaver-Fay, M. Tyka, S. M. Lewis, O. F. Lange, J. Thompson, R. Jacak, K. Kaufman, P. D. Renfrew, C. A. Smith, W. Sheffler, I. W. Davis, S. Cooper, A. Treuille, D. J. Mandell, F. Richter, Y.-E. A. Ban, S. J. Fleishman, J. E. Corn, D. E. Kim, S. Lyskov, M. Berrondo, S. Mentzer, Z. Popović, J. J. Havranek, J. Karanicolas, R. Das, J. Meiler, T. Kortemme, J. J. Gray, B. Kuhlman, D. Baker, and P. Bradley. 2011. Chapter nineteen - Rosetta3: An Object-Oriented Software Suite for the Simulation and Design of Macromolecules. Methods in Enzymology. 487: 545-574.


    • *Full citation information available through

  • Citation Note

    In addition, please cite the papers for the specific application(s) you use, citation guidance at https://www.rosettacommons.org/docs/latest/getting_started/FAQ#frequently-asked-questions_how-to-cite-rosetta-in-papers.

  • Webinars

    Phenix-Rosetta Refinement

    Topic: Refinement of challenging structures with Rosetta and Phenix
    Presenter: Nat Echols, Computational Scientist at Lawrence Berkeley National Labs

    Host: Andrew Morin
    Recorded on May 13th, 2014

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