纳米孔测序
打字
计算机科学
DNA测序
结核分枝杆菌
串联重复
计算生物学
生物
遗传学
肺结核
基因组
DNA
医学
基因
病理
作者
Cheng Tang,Rick Twee-Hee Ong
标识
DOI:10.1093/bioinformatics/btz771
摘要
Abstract Summary Mycobacterial interspersed repetitive unit-variable number tandem repeat (MIRU-VNTR) typing is widely used to genotype Mycobacterium tuberculosis complex in epidemiological studies for tracking tuberculosis transmission. Recent long-read sequencing technologies from Pacific Biosciences and Oxford Nanopore Technologies can produce reads that are long enough to cover the entire repeat regions in each MIRU-VNTR locus which was previously not possible using the short reads from Illumina high-throughput sequencing technologies. We thus developed MIRUReader for MIRU-VNTR typing directly from long sequence reads. Availability and implementation Source code and documentation for MIRUReader program is freely available at https://github.com/phglab/MIRUReader. Supplementary information Supplementary data are available at Bioinformatics online.
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