SLIMM: species level identification of microorganisms from metagenomes.

ABSTRACT: Identification and quantification of microorganisms is a significant step in studying the alpha and beta diversities within and between microbial communities respectively. Both identification and quantification of a given microbial community can be carried out using whole genome shotgun sequences with less bias than when using 16S-rDNA sequences. However, shared regions of DNA among reference genomes and taxonomic units pose a significant challenge in assigning reads correctly to their true origins. The existing microbial community profiling tools commonly deal with this problem by either preparing signature-based unique references or assigning an ambiguous read to its least common ancestor in a taxonomic tree. The former method is limited to making use of the reads which can be mapped to

SUBMITTER: Dadi TH 

PROVIDER: S-EPMC5372838 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature