Baez-Ortega Adrian, Lorenzo-Diaz Fabian, Hernandez Mariano, Gonzalez-Vila Carlos Ignacio, Roda-Garcia Jose Luis, Colebrook Marcos, Flores Carlos
Information Technology Department, Instituto Tecnológico y de Energías Renovables (ITER), Santa Cruz de Tenerife, Spain.
Applied Genomics Group (G2A), Instituto Universitario de Enfermedades Tropicales y Salud Pública de Canarias (CIBICAN), Universidad de La Laguna, Santa Cruz de Tenerife, Spain, Research Unit, Hospital Universitario Nuestra Señora de Candelaria, Santa Cruz de Tenerife, Spain.
Bioinformatics. 2015 Sep 1;31(17):2870-3. doi: 10.1093/bioinformatics/btv283. Epub 2015 May 6.
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.
我们推出了IonGAP，这是一个公开可用的网络平台，旨在使用Ion Torrent序列数据对细菌全基因组进行分析。除了组装之外，它还基于广泛使用的FASTQ、BAM和SRA文件格式，集成了各种比较基因组学、注释和细菌分类程序。使用不同数据集进行的基准测试证明，IonGAP是一个快速、强大且易于使用的生物信息学工具。通过发布这个平台，我们旨在将低成本的细菌基因组分析转化应用于医疗保健、农业食品和制药行业的微生物预防与控制。
IonGAP由ITER的泰德超级计算机托管，可在网页http://iongap.hpc.iter.es上免费供非商业使用。
mcolesan@ull.edu.es或cflores@ull.edu.es
补充数据可在《生物信息学》在线获取。
