MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads.

ABSTRACT: An increasing amount of species and gene identification studies rely on the use of next generation sequence analysis of either single isolate or metagenomics samples. Several methods are available to perform taxonomic annotations and a previous metagenomics benchmark study has shown that a vast number of false positive species annotations are a problem unless thresholds or post-processing are applied to differentiate between correct and false annotations. MGmapper is a package to process raw next generation sequence data and perform reference based sequence assignment, followed by a post-processing analysis to produce reliable taxonomy annotation at species and strain level resolution. An in-vitro bacterial mock community sample comprised of 8 genuses, 11 species and 12 strains was previou

SUBMITTER: Petersen TN 

PROVIDER: S-EPMC5415185 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature