Fulltext

Rknots: topological analysis of knotted biopolymers with R

Comoglio, Federico ; Rinaldi, Maurizio

In: Bioinformatics, 2012, vol. 28, no. 10, p. 1400-1401

Add to personal list
    Title
    • Rknots: topological analysis of knotted biopolymers with R
    Author
    • Comoglio, Federico. Department of Biosystems Science and Engineering, ETH Zurich, Basel, CH-4058, Switzerland, Life Science Zurich PhD Program on Systems Biology and Dipartimento di Scienze del Farmaco di Novara, University of Piemonte Orientale "A. Avogadro”, Novara, 28100, Italy
    • Rinaldi, Maurizio. Department of Biosystems Science and Engineering, ETH Zurich, Basel, CH-4058, Switzerland, Life Science Zurich PhD Program on Systems Biology and Dipartimento di Scienze del Farmaco di Novara, University of Piemonte Orientale "A. Avogadro”, Novara, 28100, Italy
    Document Type
    • Postprint
    OAI-PMH Identifier
    • oai:doc.rero.ch:301444
    Summary
    Motivation: Rknots is a flexible R package providing tools for the detection and characterization of topological knots in biological polymers. The package is well documented and provides a simple syntax for data import and preprocessing, structure reduction, topological analyses and 2D and 3D visualization. Remarkably, Rknots is not limited to protein knots and allows researchers from interdisciplinary fields to analyze different topological structures and to develop simple yet fully custom pipelines. Availability: Rknots is distributed under the GPL-2 license and is available from the CRAN (the Comprehensive R Archive network) at http://cran.r-project.org/web/packages/Rknots Contact: federico.comoglio@bsse.ethz.ch Supplementary Information: Supplementary data are available at Bioinformatics online