Fig. 1
From: Wochenende — modular and flexible alignment-based shotgun metagenome analysis
Schematic of the flow of information through the Wochenende pipeline. Multiple optional and configurable filter steps are implemented. Long and short reads can be handled using different alignment tools. Normalization, data integration and visualization are key components of the workflow. Plotting of genome coverage is conducted for all genomes. Rare genomes can be detected mathematically using the additional tool raspir. Lastly, an implementation of an existing algorithm allows bacterial growth rates to be predicted