NINJA-OPS: Fast Accurate Marker Gene Alignment Using Concatenated Ribosomes.

ABSTRACT: The explosion of bioinformatics technologies in the form of next generation sequencing (NGS) has facilitated a massive influx of genomics data in the form of short reads. Short read mapping is therefore a fundamental component of next generation sequencing pipelines which routinely match these short reads against reference genomes for contig assembly. However, such techniques have seldom been applied to microbial marker gene sequencing studies, which have mostly relied on novel heuristic approaches. We propose NINJA Is Not Just Another OTU-Picking Solution (NINJA-OPS, or NINJA for short), a fast and highly accurate novel method enabling reference-based marker gene matching (picking Operational Taxonomic Units, or OTUs). NINJA takes advantage of the Burrows-Wheeler (BW) alignment using an a

SUBMITTER: Al-Ghalith GA 

PROVIDER: S-EPMC4731464 | biostudies-literature | 2016 Jan

REPOSITORIES: biostudies-literature