MTSv: rapid alignment-based taxonomic classification and high-confidence metagenomic analysis.

ABSTRACT: As the size of reference sequence databases and high-throughput sequencing datasets continue to grow, it is becoming computationally infeasible to use traditional alignment to large genome databases for taxonomic classification of metagenomic reads. Exact matching approaches can rapidly assign taxonomy and summarize the composition of microbial communities, but they sacrifice accuracy and can lead to false positives. Full alignment tools provide higher confidence assignments and can assign sequences from genomes that diverge from reference sequences; however, full alignment tools are computationally intensive. To address this, we designed MTSv specifically for alignment-based taxonomic assignment in metagenomic analysis. This tool implements an FM-index assisted q-gram filter and SIMD acce

SUBMITTER: Furstenau TN 

PROVIDER: S-EPMC9651046 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature