IonGAP: integrative bacterial genome analysis for Ion Torrent sequence data
Published in Bioinformatics, 2015
Recommended citation: Baez-Ortega A, Lorenzo-Díaz F, Hernández M, González-Vila CI, Roda-García JL, Colebrook M, Flores C. "IonGAP: integrative bacterial genome analysis for Ion Torrent sequence data". Bioinformatics 31(17), 2870-2873 (2015) https://doi.org/10.1093/bioinformatics/btv283
Abstract
We introduce IonGAP, a publicly available Web platform designed for the analysis of whole bacterial genomes using Ion Torrent sequence data. Besides assembly, it integrates a variety of comparative genomics, annotation and bacterial classification routines, based on the widely used FASTQ, BAM and SRA file formats. Benchmarking with different datasets evidenced that IonGAP is a fast, powerful and simple-to-use bioinformatics tool. By releasing this platform, we aim to translate low-cost bacterial genome analysis for microbiological prevention and control in healthcare, agroalimentary and pharmaceutical industry applications.