cudaMap: a GPU accelerated program for gene expression connectivity mapping. - Darragh G. McArt; Peter Bankhead; Philip D. Dunne; Manuel Salto-Tellez; Peter Hamilton; Shu-Dong Zhang (BMC Bioinform., 2013)

QUADrATiC: scalable gene expression connectivity mapping for repurposing FDA-approved therapeutics. - Paul G. O'Reilly; Qing Wen; Peter Bankhead; Philip D. Dunne; Darragh G. McArt; Suzanne McPherson; Peter Hamilton; Ken I. Mills; Shu-Dong Zhang (BMC Bioinform., 2016)

Embracing an integromic approach to tissue biomarker research in cancer: Perspectives and lessons learned. - Gerald Li; Peter Bankhead; Philip D. Dunne; Paul G. O'Reilly; Jacqueline A. James; Manuel Salto-Tellez; Peter Hamilton; Darragh G. McArt (Briefings Bioinform., 2017)

Developing open-source software for bioimage analysis: opportunities and challenges. - Florian Levet; Anne E. Carpenter; Kevin W. Eliceiri; Anna Kreshuk; Peter Bankhead; Robert Haase 001 (F1000Research, 2021)

Metrics reloaded: Pitfalls and recommendations for image analysis validation. - Lena Maier-Hein; Annika Reinke; Evangelia Christodoulou; Ben Glocker; Patrick Godau; Fabian Isensee; Jens Kleesiek; Michal Kozubek 001; Mauricio Reyes 001; Michael A. Riegler; Manuel Wiesenfarth; Michael Baumgartner 001; et al. (CoRR, 2022)

Open and reusable deep learning for pathology with WSInfer and QuPath. - Jakub R. Kaczmarzyk; Alan O'Callaghan; Fiona Inglis; Tahsin M. Kurç; Rajarsi Gupta 001; Erich Bremer; Peter Bankhead; Joel H. Saltz (CoRR, 2023)

AimSeg: A machine-learning-aided tool for axon, inner tongue and myelin segmentation. - Pau Carrillo-Barberà; Ana Maria Rondelli; Jose Manuel Morante-Redolat; Bertrand Vernay; Anna Williams; Peter Bankhead (PLoS Comput. Biol., 2023)

InstanSeg: an embedding-based instance segmentation algorithm optimized for accurate, efficient and portable cell segmentation. - Thibaut Goldsborough; Ben Philps; Alan O'Callaghan; Fiona Inglis; Leo Leplat; Andrew Filby; Hakan Bilen; Peter Bankhead (CoRR, 2024)

Liver-Quant: Feature-based image analysis toolkit for automatic quantification of metabolic dysfunction-associated steatotic liver disease. - Mohsen Farzi; Clare McGenity; Alyn Cratchley; Leo Leplat; Peter Bankhead; Alexander I. Wright; Darren Treanor (Comput. Biol. Medicine, 2025)