Describing ancient horizontal gene transfers at the nucleotide and gene levels by comparative pathogenicity island genometrics. - F. Collyn; Lionel Guy; M. Marceau; M. Simonet; Claude-Alain H. Roten (Bioinform., 2006)

genoPlotR: comparative gene and genome visualization in R. - Lionel Guy; Jens Roat Kultima; Siv G. E. Andersson (Bioinform., 2010)

phyloSkeleton: taxon selection, data retrieval and marker identification for phylogenomics. - Lionel Guy (Bioinform., 2017)

miComplete: weighted quality evaluation of assembled microbial genomes. - Eric Hugoson; Wai Tin Lam; Lionel Guy (Bioinform., 2020)

TADA: taxonomy-aware dataset aggregator. - Emil Hägglund; Siv G. E. Andersson; Lionel Guy (Bioinform., 2023)