VeriNA3d: an R package for nucleic acids data mining

Diego Gallego; Leonardo Darré; Pablo D Dans; Modesto Orozco

doi:10.1093/bioinformatics/btz553

VeriNA3d: an R package for nucleic acids data mining

Bioinformatics. 2019 Dec 15;35(24):5334-5336. doi: 10.1093/bioinformatics/btz553.

Authors

Diego Gallego^{1

2}, Leonardo Darré^{1

3}, Pablo D Dans¹, Modesto Orozco^{1

2}

Affiliations

¹ Computational Biology Node, Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology.
² Department of Biochemistry and Biomedicine, Faculty of Biology, University of Barcelona, Barcelona, Spain.
³ Functional Genomics Laboratory and Biomolecular Simulations Laboratory, Institute Pasteur of Montevideo, Montevideo, Uruguay.

PMID: 31286135
DOI: 10.1093/bioinformatics/btz553

Abstract

Summary: veriNA3d is an R package for the analysis of nucleic acids structural data, with an emphasis in complex RNA structures. In addition to single-structure analyses, veriNA3d also implements functions to handle whole datasets of mmCIF/PDB structures that could be retrieved from public/local repositories. Our package aims to fill a gap in the data mining of nucleic acids structures to produce flexible and high throughput analysis of structural databases.

Availability and implementation: http://mmb.irbbarcelona.org/gitlab/dgallego/veriNA3d.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Data Mining*
Nucleic Acids
Software*

Substances

Nucleic Acids