A Novel Sparse Compositional Technique Reveals Microbial Perturbations
University of California San Diego · National Oceanic and Atmospheric Administration · +4 more institutions
Abstract
By accounting for the sparse compositional nature of microbiome data sets, robust Aitchison PCA can yield high discriminatory power and salient feature ranking between microbial niches. The software to perform this analysis is available under an open-source license and can be obtained at https://github.com/biocore/DEICODE; additionally, a QIIME 2 plugin is provided to perform this analysis at https://library.qiime2.org/plugins/deicode/.
Citation impact
- FWCI
- 21.79
- Percentile
- 100%
- References
- 66
Authors
7- CMCameron MartinoCorresponding
University of California San Diego
- JTJames T. Morton
University of California San Diego
- CMClarisse Marotz
University of California San Diego
- LTLuke Thompson
National Oceanic and Atmospheric Administration, NOAA Atlantic Oceanographic and Meteorological Laboratories, Northern Gulf Institute, NOAA National Marine Fisheries Service Southwest Fisheries Science Center, University of Southern Mississippi
- ATAnupriya Tripathi
University of California San Diego
Topics & keywords
- Beta diversity
- Microbiome
- Salient
- Compositional data
- Robustness (evolution)
- Metric (unit)
- Computer science
- Curse of dimensionality
- Reduced inequalities