Unipro UGENE: a unified bioinformatics toolkit

Unipro UGENE is a multiplatform open-source software with the main goal of assisting molecular biologists without much expertise in bioinformatics to manage, analyze and visualize their data. UGENE integrates widely used bioinformatics tools within a common user interface. The toolkit supports multi...

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Bibliographic Details
Published in:Bioinformatics (Oxford, England) Vol. 28; no. 8; pp. 1166 - 1167
Main Authors: Okonechnikov, Konstantin, Golosova, Olga, Fursov, Mikhail
Format: Journal Article
Language:English
Published: England 15.04.2012
Subjects:
Algorithms
Computational Biology - instrumentation
Computational Biology - methods
Computing Methodologies
High-Throughput Nucleotide Sequencing
Molecular Sequence Annotation
Phylogeny
Sequence Alignment
Software
Workflow
ISSN:1367-4803, 1367-4811, 1367-4811
Online Access:Get full text
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Summary:Unipro UGENE is a multiplatform open-source software with the main goal of assisting molecular biologists without much expertise in bioinformatics to manage, analyze and visualize their data. UGENE integrates widely used bioinformatics tools within a common user interface. The toolkit supports multiple biological data formats and allows the retrieval of data from remote data sources. It provides visualization modules for biological objects such as annotated genome sequences, Next Generation Sequencing (NGS) assembly data, multiple sequence alignments, phylogenetic trees and 3D structures. Most of the integrated algorithms are tuned for maximum performance by the usage of multithreading and special processor instructions. UGENE includes a visual environment for creating reusable workflows that can be launched on local resources or in a High Performance Computing (HPC) environment. UGENE is written in C++ using the Qt framework. The built-in plugin system and structured UGENE API make it possible to extend the toolkit with new functionality. Availability and implementation: UGENE binaries are freely available for MS Windows, Linux and Mac OS X at http://ugene.unipro.ru/download.html. UGENE code is licensed under the GPLv2; the information about the code licensing and copyright of integrated tools can be found in the LICENSE.3rd_party file provided with the source bundle. Contact:  ugene@unipro.ru Supplementary information:  Supplementary data are available at Bioinformatics online.
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ISSN:1367-4803
1367-4811
1367-4811
DOI:10.1093/bioinformatics/bts091