The GEN-ERA toolbox: unified and reproducible workflows for research in microbial genomics.

Luc Cornet Benoit Durieu Frederik Baert Elizabet D'hooge David Colignon Loic Meunier Valérian Lupo Ilse Cleenwerck Heide-Marie Daniel Leen Rigouts Damien Sirjacobs Stéphane Declerck Peter Vandamme Annick Wilmotte Denis Baurain Pierre Becker

Published in: GigaScience (2023)

The GEN-ERA toolbox can be used to infer completely reproducible comparative genomic and metabolic analyses on prokaryotes and small eukaryotes. Although designed for routine bioinformatics of culture collections, it can also be used by all researchers interested in microbial taxonomy, as exemplified by our case study on Gloeobacterales.

Keyphrases

microbial community
single cell
clinical practice
copy number
gene expression
dna methylation
genome wide