Recentrifuge: Robust comparative analysis and contamination removal for metagenomics.

ABSTRACT: Metagenomic sequencing is becoming widespread in biomedical and environmental research, and the pace is increasing even more thanks to nanopore sequencing. With a rising number of samples and data per sample, the challenge of efficiently comparing results within a specimen and between specimens arises. Reagents, laboratory, and host related contaminants complicate such analysis. Contamination is particularly critical in low microbial biomass body sites and environments, where it can comprise most of a sample if not all. Recentrifuge implements a robust method for the removal of negative-control and crossover taxa from the rest of samples. With Recentrifuge, researchers can analyze results from taxonomic classifiers using interactive charts with emphasis on the confidence level of the class

SUBMITTER: Marti JM 

PROVIDER: S-EPMC6472834 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature