Commonly used compositional data analysis implementations are not advantageous in microbial differential abundance analyses benchmarked against biological ground truth
Samuel David Gamboa-Tuz, Marcel Ramos, Eric A. Franzosa, Curtis Huttenhower, Nicola Segata, Sehyun Oh, Levi Waldron
The paper benchmarks differential abundance methods using microbiome datasets with known biological ground truth, finding that compositional methods are less effective than commonly used non-compositional approaches.
bioRxiv · Feb 13, 2025 · PreprintBioinformatics