DistributedFBA.jl: high-level, high-performance flux balance analysis in Julia. - Laurent Heirendt; Ines Thiele; Ronan M. T. Fleming (Bioinform., 2017)

ARTENOLIS: Automated Reproducibility and Testing Environment for Licensed Software. - Laurent Heirendt; Sylvain Arreckx; Christophe Trefois; Yohan Yarosz; Maharshi Vyas; Venkata P. Satagopam; Reinhard Schneider 002; Ines Thiele; Ronan M. T. Fleming (CoRR, 2017)

The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities. - Federico Baldini; Almut Heinken; Laurent Heirendt; Stefanía Magnúsdóttir; Ronan M. T. Fleming; Ines Thiele (Bioinform., 2019)

The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease. - Alberto Noronha; Jennifer Modamio; Yohan Jarosz; Elisabeth Guerard; Nicolas Sompairac; German A. Preciat Gonzalez; Anna Dröfn Daníelsdóttir; Max Krecke; Diane Merten; Hulda S. Haraldsdóttir; Almut Heinken; Laurent Heirendt; et al. (Nucleic Acids Res., 2019)

COBREXA.jl: constraint-based reconstruction and exascale analysis. - Miroslav Kratochvíl; Laurent Heirendt; St. Elmo Wilken; Taneli Pusa; Sylvain Arreckx; Alberto Noronha; Marvin van Aalst; Venkata P. Satagopam; Oliver Ebenhöh; Reinhard Schneider 002; Christophe Trefois; Wei Gu (Bioinform., 2022)

Visualization of automatically combined disease maps and pathway diagrams for rare diseases. - Piotr Gawron; David Hoksza; Janet Piñero; María Peña-Chilet; Marina Esteban-Medina; Jose Luis Fernandez-Rueda; Vincenza Colonna; Ewa Smula; Laurent Heirendt; François Ancien; Valentin Grouès; Venkata P. Satagopam; et al. (Frontiers Bioinform., 2023)