TinGa: fast and flexible trajectory inference with Growing Neural Gas. - Helena Todorov; Robrecht Cannoodt; Wouter Saelens; Yvan Saeys (Bioinform., 2020)

The Rockerverse: Packages and Applications for Containerization with R. - Daniel Nüst; Dirk Eddelbuettel; Dom Bennett; Robrecht Cannoodt; Dav Clark; Gergely Daroczi; Mark Edmondson; Colin Fay; Ellis Hughes; Sean Lopp; Ben Marwick; Heather Nolis; et al. (CoRR, 2020)

The Rockerverse: Packages and Applications for Containerisation with R. - Daniel Nüst; Dirk Eddelbuettel; Dom Bennett; Robrecht Cannoodt; Dav Clark; Gergely Daroczi; Mark Edmondson; Colin Fay; Ellis Hughes; Lars Kjeldgaard; Sean Lopp; Ben Marwick; et al. (R J., 2020)

Multimodal single cell data integration challenge: Results and lessons learned. - Christopher Lance; Malte D. Lücken; Daniel B. Burkhardt; Robrecht Cannoodt; Pia Rautenstrauch; Anna Laddach; Aidyn Ubingazhibov; Zhi-Jie Cao; Kaiwen Deng; Sumeer Khan; Qiao Liu 008; Nikolay Russkikh; et al. (NeurIPS (Competition and Demos), 2021)

A sandbox for prediction and integration of DNA, RNA, and proteins in single cells. - Malte Lücken; Daniel Burkhardt; Robrecht Cannoodt; Christopher Lance; Aditi Agrawal; Hananeh Aliee; Ann Chen; Louise Deconinck; Angela Detweiler; Alejandro Granados; Shelly Huynh; Laura Isacco; et al. (NeurIPS Datasets and Benchmarks, 2021)

Viash: from scripts to pipelines. - Robrecht Cannoodt; Hendrik Cannoodt; Eric Van de Kerckhove; Andy Boschmans; Dries De Maeyer; Toni Verbeiren (CoRR, 2021)

A benchmark for prediction of transcriptomic responses to chemical perturbations across cell types. - Artur Szalata; Andrew Benz; Robrecht Cannoodt; Mauricio Cortes; Jason Fong; Sunil Kuppasani; Richard Lieberman; Tianyu Liu; Javier Mas-Rosario; Rico Meinl; Jalil Nourisa; Jared Tumiel; et al. (NeurIPS, 2024)

Viash: A meta-framework for building reusable workflow modules. - Robrecht Cannoodt; Hendrik Cannoodt; Dries Schaumont; Kai Waldrant; Eric Van de Kerckhove; Andy Boschmans; Dries De Maeyer; Toni Verbeiren (J. Open Source Softw., 2024)

funkyheatmap: Visualising data frames with mixed data types. - Robrecht Cannoodt; Louise Deconinck; Artuur Couckuyt; Nikolay S. Markov; Luke Zappia; Malte D. Lücken; Marta Interlandi; Yvan Saeys; Wouter Saelens (J. Open Source Softw., 2025)