Dugong: a Docker image, based on Ubuntu Linux, focused on reproducibility and replicability for bioinformatics analyses

Fabiano B Menegidio; Daniela L Jabes; Regina Costa de Oliveira; Luiz R Nunes

doi:10.1093/bioinformatics/btx554

Dugong: a Docker image, based on Ubuntu Linux, focused on reproducibility and replicability for bioinformatics analyses

Bioinformatics. 2018 Feb 1;34(3):514-515. doi: 10.1093/bioinformatics/btx554.

Authors

Fabiano B Menegidio¹, Daniela L Jabes¹, Regina Costa de Oliveira¹, Luiz R Nunes²

Affiliations

¹ Núcleo Integrado de Biotecnologia, Universidade de Mogi das Cruzes (UMC), 08780-911, Mogi das Cruzes, SP, Brazil.
² Centro de Ciências Naturais e Humanas, Universidade Federal do ABC (UFABC), 09210-170, Santo André, SP, Brazil.

PMID: 28968637
DOI: 10.1093/bioinformatics/btx554

Abstract

Summary: This manuscript introduces and describes Dugong, a Docker image based on Ubuntu 16.04, which automates installation of more than 3500 bioinformatics tools (along with their respective libraries and dependencies), in alternative computational environments. The software operates through a user-friendly XFCE4 graphic interface that allows software management and installation by users not fully familiarized with the Linux command line and provides the Jupyter Notebook to assist in the delivery and exchange of consistent and reproducible protocols and results across laboratories, assisting in the development of open science projects.

Availability and implementation: Source code and instructions for local installation are available at https://github.com/DugongBioinformatics, under the MIT open source license.

Contact: Luiz.nunes@ufabc.edu.br.

Publication types

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

MeSH terms

Computational Biology / methods
Computational Biology / standards*
Reproducibility of Results
Software*