CATE: A CUDA-based tool for evolutionary testing on large-scale genomic data
CATE, or CUDA Accelerated Testing of Evolution, is a GPU-powered software solution designed for large-scale parallelization in genomic analysis.
You can cite CATE in your work using:
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.
CATE now comes equipped with Apollo. Apollo is a virion resolution within-host viral simulator. It utilizes our large-scale data processing innovations that power CATE to conduct robust, intricate simulations.
Apollo is currently available on preprint. If you do use it please cite the preprint:
Apollo: A comprehensive GPU-powered within-host simulator for viral evolution and infection dynamics across population, tissue, and cell Deshan Perera, Evan Li, Frank van der Meer, Tarah Lynch, John Gill, Deirdre L Church, Christian D. Huber, Guido van Marle, Alexander Platt, Quan Long
bioRxiv 2024.10.07.617101; doi: https://doi.org/10.1101/2024.10.07.617101
