Stana: an R package for metagenotyping analysis and interactive application based on clinical data.

ABSTRACT: Metagenotyping of metagenomic data has recently attracted increasing attention as it resolves intraspecies diversity by identifying single nucleotide variants. Furthermore, gene copy number analysis within species provides a deeper understanding of metabolic functions in microbial communities. However, a platform for examining metagenotyping results based on relevant grouping data is lacking. Here, we have developed the R package, stana, for the processing and analysis of metagenotyping results. The package consists of modules for preprocessing, statistical analysis, functional analysis and visualization. An interactive analysis environment for exploring the metagenotyping results was also developed and publicly released with over 1000 publicly available metagenome samples related to human

SUBMITTER: Sato N 

PROVIDER: S-EPMC11707543 | biostudies-literature | 2025 Mar

REPOSITORIES: biostudies-literature