TidyMicro: a pipeline for microbiome data analysis and visualization using the tidyverse in R.

ABSTRACT:

Background

The drive to understand how microbial communities interact with their environments has inspired innovations across many fields. The data generated from sequence-based analyses of microbial communities typically are of high dimensionality and can involve multiple data tables consisting of taxonomic or functional gene/pathway counts. Merging multiple high dimensional tables with study-related metadata can be challenging. Existing microbiome pipelines available in R have created their own data structures to manage this problem. However, these data structures may be unfamiliar to analysts new to microbiome data or R and do not allow for deviations from internal workflows. Existing analysis tools also focus primarily on community-level analyses and exploratory visualizations,

SUBMITTER: Carpenter CM 

PROVIDER: S-EPMC7852128 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature