InteractiveROSETTA: a graphical user interface for the PyRosetta protein modeling suite

Bioinformatics
Christian D Schenkelberg, Christopher Bystroff

Abstract

Modern biotechnical research is becoming increasingly reliant on computational structural modeling programs to develop novel solutions to scientific questions. Rosetta is one such protein modeling suite that has already demonstrated wide applicability to a number of diverse research projects. Unfortunately, Rosetta is largely a command-line-driven software package which restricts its use among non-computational researchers. Some graphical interfaces for Rosetta exist, but typically are not as sophisticated as commercial software. Here, we present InteractiveROSETTA, a graphical interface for the PyRosetta framework that presents easy-to-use controls for several of the most widely used Rosetta protocols alongside a sophisticated selection system utilizing PyMOL as a visualizer. InteractiveROSETTA is also capable of interacting with remote Rosetta servers, facilitating sophisticated protocols that are not accessible in PyRosetta or which require greater computational resources. InteractiveROSETTA is freely available at https://github.com/schenc3/InteractiveROSETTA/releases and relies upon a separate download of PyRosetta which is available at http://www.pyrosetta.org after obtaining a license (free for academic use). bystrc@rpi.edu.

References

Oct 28, 2003·Proteins·Dylan ChivianDavid Baker
Nov 25, 2003·Science·Brian KuhlmanDavid Baker
Aug 25, 2009·Proteins·Srivatsan RamanDavid Baker
Dec 29, 2010·Methods in Enzymology·Andrew Leaver-FayPhilip Bradley
Aug 23, 2011·PloS One·Evan H BaughJeffrey J Gray
Nov 9, 2011·Proceedings of the National Academy of Sciences of the United States of America·Firas KhatibFoldit Players
Jul 23, 2013·PloS One·Jared Adolf-Bryfogle, Roland L Dunbrack

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Citations

Jan 21, 2016·Bioinformatics·Christian D Schenkelberg, Christopher Bystroff
Aug 5, 2016·Biochemistry·Brian J BenderRocco Moretti
Sep 27, 2018·BMC Bioinformatics·William F HooperChristopher Bystroff
Nov 17, 2020·Frontiers in Bioengineering and Biotechnology·Chun-Ting YehFabio Parmeggiani

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