Genomic characterization of pathogens is an increasing priority for public health laboratories globally. The workflows in the TheiaMeta Genomic Characterization Series make the analysis of pathogens from metagenomic samples easy by taking raw next-generation sequencing (NGS) data and generating metagenome-assembled genomes (MAGs), either using a reference-genome or not.

TheiaMeta can use one of two distinct methods for generating and processing the final assembly:

If a reference genome is not provided, the de novo assembly will be the final assembly. Additionally, go through a binning process where the contigs are separated into distinct files (”bins”) according to composition and coverage such that each bin hopefully contains a single taxon.
If a reference genome is provided by the user, the de novo metagenomic assembly is filtered by mapping the contigs to the reference and those constitute the final assembly. No binning is necessary as the mapping will filter contigs that are likely the same taxon as the reference.

Workflows available

Overview

Inputs

Tasks

Outputs

References