Contamination detection and microbiome exploration with GRIMER.

ABSTRACT:

Background

Contamination detection is a important step that should be carefully considered in early stages when designing and performing microbiome studies to avoid biased outcomes. Detecting and removing true contaminants is challenging, especially in low-biomass samples or in studies lacking proper controls. Interactive visualizations and analysis platforms are crucial to better guide this step, to help to identify and detect noisy patterns that could potentially be contamination. Additionally, external evidence, like aggregation of several contamination detection methods and the use of common contaminants reported in the literature, could help to discover and mitigate contamination.

Results

We propose GRIMER, a tool that performs automated analyses and generates a portabl

SUBMITTER: Piro VC 

PROVIDER: S-EPMC10061425 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature