MICRA: an automatic pipeline for fast characterization of microbial genomes from high-throughput sequencing data

被引：0
作者：
Ségolène Caboche
Gaël Even
Alexandre Loywick
Christophe Audebert
David Hot
机构：
[1] University of Lille,
[2] CNRS,undefined
[3] Inserm,undefined
[4] CHU Lille,undefined
[5] Institut Pasteur de Lille,undefined
[6] U1019-UMR 8204-CIIL-Centre d’Infection et d’Immunité de Lille,undefined
[7] Genes Diffusion,undefined
[8] PEGASE-Biosciences,undefined
[9] Institut Pasteur de Lille,undefined
来源：
Genome Biology | / 18卷
关键词：
Bioinformatics pipeline; Comparative genomics; Microbial genome characterization; High-throughput sequencing;
D O I：
暂无
中图分类号：
学科分类号：
摘要：
The increase in available sequence data has advanced the field of microbiology; however, making sense of these data without bioinformatics skills is still problematic. We describe MICRA, an automatic pipeline, available as a web interface, for microbial identification and characterization through reads analysis. MICRA uses iterative mapping against reference genomes to identify genes and variations. Additional modules allow prediction of antibiotic susceptibility and resistance and comparing the results of several samples. MICRA is fast, producing few false-positive annotations and variant calls compared to current methods, making it a tool of great interest for fully exploiting sequencing data.
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