UMGAP: the Unipept MetaGenomics Analysis Pipeline.

ABSTRACT:

Background

Shotgun metagenomics yields ever richer and larger data volumes on the complex communities living in diverse environments. Extracting deep insights from the raw reads heavily depends on the availability of fast, accurate and user-friendly biodiversity analysis tools.

Results

Because environmental samples may contain strains and species that are not covered in reference databases and because protein sequences are more conserved than the genes encoding them, we explore the alternative route of taxonomic profiling based on protein coding regions translated from the shotgun metagenomics reads, instead of directly processing the DNA reads. We therefore developed the Unipept MetaGenomics Analysis Pipeline (UMGAP), a highly versatile suite of open source tools that are i

SUBMITTER: Van der Jeugt F 

PROVIDER: S-EPMC9188040 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature