MoGAAAP

During my PhD (2020-2025) I have developed the workflow MoGAAAP (Modular Genome Assembly, Annotation and Quality Assessment Pipeline), written in Snakemake. This pipeline is designed to automate the assembly, annotation and QA of sets of genomes with the aim of constructing population-level pangenomes. It is modular, so that it can also be used for e.g. the annotation and QA of an already existing assembly.