IonGAP: integrative bacterial genome analysis for Ion Torrent sequence data.
other · Level V
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- Record sourced from PubMed, PMID 25953799.
- Also identified by DOI 10.1093/bioinformatics/btv283.
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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. IonGAP is hosted by the ITER's Teide-HPC supercomputer and is freely available on the Web for non-commercial use at http://iongap.hpc.iter.es. mcolesan@ull.edu.es or cflores@ull.edu.es Supplementary data are available at Bioinformatics online.
Medical subject headings
- Bacteria
- Computational Biology
- Genome, Bacterial
- High-Throughput Nucleotide Sequencing
- Sequence Analysis, DNA
- Software