Rhea: a transparent and modular R pipeline for microbial profiling based on 16S rRNA gene amplicons.

ABSTRACT: The importance of 16S rRNA gene amplicon profiles for understanding the influence of microbes in a variety of environments coupled with the steep reduction in sequencing costs led to a surge of microbial sequencing projects. The expanding crowd of scientists and clinicians wanting to make use of sequencing datasets can choose among a range of multipurpose software platforms, the use of which can be intimidating for non-expert users. Among available pipeline options for high-throughput 16S rRNA gene analysis, the R programming language and software environment for statistical computing stands out for its power and increased flexibility, and the possibility to adhere to most recent best practices and to adjust to individual project needs. Here we present the Rhea pipeline, a set of R scripts

SUBMITTER: Lagkouvardos I 

PROVIDER: S-EPMC5234437 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature