Citation
CATE has been successfully published in the journal Methods in Ecology and Evolution (MEE). If you find this framework or the software solution useful in your analyses, please CITE the published article available in MEE, CATE: A fast and scalable CUDA implementation to conduct highly parallelized evolutionary tests on large scale genomic data.
The details of the citations are listed below:
Perera, D., Reisenhofer, E., Hussein, S., Higgins, E., Huber, C. D., & Long, Q. (2023). CATE: A fast and scalable CUDA implementation to conduct highly parallelized evolutionary tests on large scale genomic data. Methods in Ecology and Evolution, 00, 1–15. https://doi.org/10.1111/2041-210X.14168.
Citation of the code can be done via the Zenodo link below:
Apollo has been successfully published in Nature Communications. The citation details are below.
Perera, D., Li, E., Gordon, P.M., van der Meer, F., Lynch, T., Gill, J., Church, D.L., de Koning, A.P.J., Huber, C.D., van Marle, G., Platt, A., Long, Q., 2025. Apollo: a comprehensive GPU-powered within-host simulator for viral evolution and infection dynamics across population, tissue, and cell. Nature Communications 2025 16:1 16, 1–17. https://doi.org/10.1038/s41467-025-60988-8
To cite CATE's code with Apollo's integration, please cite the Zenodo release:
